Package

Mar1
A3
abc
abcdeFBA
ABCExtremes
ABCoptim
ABCp2
abctools
abd
abf2
abind
abn
abundant
accelerometry
AcceptanceSampling
ACCLMA
accrual
accrued
ACD
Ace
acepack
acer
aCGH.Spline
acm4r
ACNE
acopula
aCRM
acs
acss
acss.data
ACTCD
Actigraphy
actuar
ActuDistns
ada
adabag
adagio
AdapEnetClass
AdaptFit
AdaptFitOS
AdaptiveSparsity
adaptivetau
adaptMCMC

Title
Multivariate Autoregressive Modeling for Analysis of Community Time-Series Data
A3: Accurate, Adaptable, and Accessible Error Metrics for Predictive Models
Tools for Approximate Bayesian Computation (ABC)
ABCDE_FBA: A-Biologist-Can-Do-Everything of Flux Balance Analysis with this package
ABC Extremes
Implementation of Artificial Bee Colony (ABC) Optimization
Approximate Bayesian Computational model for estimating P2
Tools for ABC analyses
The Analysis of Biological Data
Load Axon ABF2 files (currently only in gap-free recording mode)
Combine multi-dimensional arrays
Data Modelling with Additive Bayesian Networks
Abundant regression and high-dimensional principal fitted components
Functions for processing minute-to-minute accelerometer data
Creation and evaluation of Acceptance Sampling Plans
ACC & LMA Graph Plotting
Bayesian Accrual Prediction
Visualization tools for partially accruing data
Categorical data analysis with complete or missing responses
Assay-based Cross-sectional Estimation of incidence rates
ace() and avas() for selecting regression transformations
The ACER Method for Extreme Value Estimation
Robust spline interpolation for dual color array comparative genomic hybridisation data
Align-and-Count Method comparisons of RFLP data
Affymetrix SNP probe-summarization using non-negative matrix factorization
Modelling dependence with multivariate Archimax (or any user-defined continuous) copulas
Convenience functions for analytical Customer Relationship Management
Download, manipulate, and present data from the US Census American Community Survey
Algorithmic Complexity for Short Strings
Data Only: Algorithmic Complexity of Short Strings (Computed via Coding Theorem Method)
Asymptotic Classification Theory for Cognitive Diagnosis
Actigraphy Data Analysis
Actuarial functions
Functions for actuarial scientists
ada: an R package for stochastic boosting
Applies multiclass AdaBoost.M1, AdaBoost-SAMME and Bagging
Discrete and Global Optimization Routines
A class of adaptive elastic net methods for censored data
Adaptive Semiparametic Regression
Adaptive Semiparametric Regression with Simultaneous Confidence Bands
Adaptive Sparsity Models
Tau-leaping stochastic simulation
Implementation of a generic adaptive Monte Carlo Markov Chain sampler

adaptsmoFMRI
adaptTest
additivityTests
ade4
ade4TkGUI
adegenet
adehabitat
adehabitatHR
adehabitatHS
adehabitatLT
adehabitatMA
adephylo
AdequacyModel
ADGofTest
adhoc
adimpro
adlift
ADM3
AdMit
ads
aemo
AER
afex
AFLPsim
aftgee
AGD
agop
agRee
Agreement
agricolae
agridat
agrmt
AGSDest
ahaz
AICcmodavg
AID
aidar
AIM
akima
akmeans
alabama
ALDqr
aLFQ
AlgDesign
algstat
ALKr
allan

Adaptive Smoothing of FMRI Data

Adaptive two-stage tests
Additivity tests in the two way ANOVA with single sub-class numbers
Analysis of Ecological Data : Exploratory and Euclidean methods in Environmental sciences
ade4 Tcl/Tk Graphical User Interface
adegenet: an R package for the exploratory analysis of genetic and genomic data
Analysis of habitat selection by animals
Home range Estimation
Analysis of habitat selection by animals
Analysis of animal movements
Tools to Deal with Raster Maps
adephylo: exploratory analyses for the phylogenetic comparative method
Adequacy of probabilistic models and generation of pseudo-random numbers
Anderson-Darling GoF test
calculate ad hoc distance thresholds for DNA barcoding identification
Adaptive Smoothing of Digital Images
An adaptive lifting scheme algorithm
An Interpretation of the ADM method - automated detection algorithm
Adaptive Mixture of Student-t distributions
Spatial point patterns analysis
Download and process AEMO price and demand data
Applied Econometrics with R
Analysis of Factorial Experiments
Hybrid simulation and genome scan for dominant markers
Accelerated Failure Time Model with Generalized Estimating Equations
Analysis of Growth Data
Aggregation Operators and Preordered Sets
Various Methods for Measuring Agreement
Statistical Tools for Measuring Agreement
Statistical Procedures for Agricultural Research
Agricultural datasets
Calculate agreement
Estimation in adaptive group sequential trials
Regularization for semiparametric additive hazards regression
Model selection and multimodel inference based on (Q)AIC(c)
An R Package to Estimate Box-Cox Power Transformation Parameter
Tools for reading AIDA (http://aida.freehep.org/) files into R
AIM: adaptive index model
Interpolation of irregularly spaced data
Adaptive Kmeans algorithm based on threshold
Constrained nonlinear optimization
Quantile Regression Using Asymmetric Laplace Distribution
An R-package for estimating absolute protein quantities from label-free LC-MS/MS proteomics data
Algorithmic Experimental Design
Algebraic statistics in R
Generate Age-Length Keys for fish populations
Automated Large Linear Analysis Node

allanvar
allelematch
AlleleRetain
allelic
AllPossibleSpellings
alm
alphahull
alphashape3d
alr3
alr4
ALS
ALSCPC
amap
AMAP.Seq
amei
Amelia
amen
AmericanCallOpt
AMGET
aml
AMOEBA
AMORE
AmpliconDuo
anacor
anaglyph
analogue
AnalyzeFMRI
anametrix
anapuce
AncestryMapper
anchors
AnDE
andrews
anesrake
Animal
animalTrack
animation
AnnotLists
anoint
anominate
ant
AnthropMMD
Anthropometry
antitrust
AntWeb
aod

Allan Variance Analysis

Identifying unique multilocus genotypes where genotyping error and missing data may be present
Allele Retention, Inbreeding, and Demography
A fast, unbiased and exact allelic exact test
Computes all of a word's possible spellings
R wrapper to the almetrics API platform developed by PLoS
Generalization of the convex hull of a sample of points in the plane
Implementation of the 3D alpha-shape for the reconstruction of 3D sets from a point cloud
Data to accompany Applied Linear Regression 3rd edition
Data to accompany Applied Linear Regression 4rd edition
multivariate curve resolution alternating least squares (MCR-ALS)
Accelerated line search algorithm for simultaneous orthogonal transformation of several positive definite
symmetric matrices to nearly diagonal form
Another Multidimensional Analysis Package
Compare Gene Expressions from 2-Treatment RNA-Seq Experiments
Adaptive Management of Epidemiological Interventions
Amelia II: A Program for Missing Data
Additive and multiplicative effects modeling of networks and relational data
This package includes pricing function for selected American call options with underlying assets that
generate payouts
Post-processing tool for ADAPT 5
Adaptive Mixed LASSO
A Multidirectional Optimum Ecotope-Based Algorithm
A MORE flexible neural network package
Statistical Analysis Of Amplicon Data Of The Same Sample To Identify Artefacts
Simple and Canonical Correspondence Analysis
3D Anaglyph Plots
Analogue and weighted averaging methods for palaeoecology
Functions for analysis of fMRI datasets stored in the ANALYZE or NIFTI format
Bidirectional connector to Anametrix API
Tools for microarray data analysis
Ancestry Mapper
Statistical analysis of surveys with anchoring vignettes
An extended Bayesian Learning Technique developed by Dr. Geoff Webb
Andrews curves
ANES Raking Implementation
Analyze time-coded animal behavior data
Animal track reconstruction for high frequency 2-dimensional (2D) or 3-dimensional (3D) movement
data
A gallery of animations in statistics and utilities to create animations
AnnotLists: A tool to annotate multiple lists from a specific annotation file
Analysis of interactions
alpha-NOMINATE Ideal Point Estimator
Version of ant specific to R
A GUI for Mean Measures of Divergence
Statistical methods for anthropometric data oriented towards the ergonomic design of products
Antitrust Library
programmatic interface to the AntWeb
Analysis of Overdispersed Data

aods3
AOfamilies
aoristic
apcluster
ape
aplpack
apmsWAPP
appell
apple
AppliedPredictiveModeli
ng
approximator
aprof
APSIMBatch
apsimr
apsrtable
apt
apTreeshape
aqfig
aqp
aqr
AquaEnv
AR1seg
ARAMIS
archetypes
ArDec
arf3DS4
arfima
argosfilter
argparse
argparser
arm
arnie
aroma.affymetrix
aroma.apd
aroma.cn
aroma.core
ARPobservation
aRpsDCA
ArrayBin
arrayhelpers
ars
ARTIVA
ARTP
arules
arulesNBMiner
arulesSequences

Analysis of Overdispersed Data using S3 methods

Aranda-Ordaz (AO) transformation families
aoristic analysis with spatial output (kml)
Affinity Propagation Clustering
Analyses of Phylogenetics and Evolution
Another Plot PACKage: stem.leaf, bagplot, faces, spin3R, plotsummary, plothulls, and some slider
functions
Pre- and Postprocessing for AP-MS data analysis based on spectral counts
Compute Appell's F1 hypergeometric function
Approximate Path for Penalized Likelihood Estimators
Functions and Data Sets for 'Applied Predictive Modeling'
Bayesian prediction of complex computer codes
Amdahl's profiler, directed optimization made easy
Analysis the output of Apsim software
Edit, run and evaluate APSIM simulations from R easily
apsrtable model-output formatter for social science
Asymmetric Price Transmission (apt)
Analyses of Phylogenetic Treeshape
Functions to help display air quality model output and monitoring data
Algorithms for Quantitative Pedology
Interface methods to use with an ActiveQuant Master Server
AquaEnv - an integrated development toolbox for aquatic chemical model generation
Segmentation of an autoregressive Gaussian process of order 1
A R Adaptive Multiple Importance Sampling
Archetypal Analysis
Time series autoregressive-based decomposition
Activated Region Fitting, fMRI data analysis (3D)
Fractional ARIMA Time Series Modeling
Argos locations filter
Command line optional and positional argument parser
Command-line argument parser
Data Analysis Using Regression and Multilevel/Hierarchical Models
"Arnie" box office records 1982-2014
Analysis of large Affymetrix microarray data sets
A probe-level data file format used by aroma.affymetrix [DEPRECATED]
Copy-number analysis of large microarray data sets
Core methods and classes used by aroma.* packages part of The Aroma Framework
Tools for simulating different methods of observing behavior based on alternating renewal processes
Arps Decline Curve Analysis in R
Binarization of numeric data arrays
Convenience functions for arrays
Adaptive Rejection Sampling
Infer a time-varying DBN network from time series data
Gene and Pathway p-values computed using the Adaptive Rank Truncated Product
Mining Association Rules and Frequent Itemsets
Mining NB-Frequent Itemsets and NB-Precise Rules
Mining frequent sequences

arulesViz
asbio
ascii
ascrda
asd
ash
aspace
aspect
assertive
assertthat
AssetPricing
AssotesteR
aster
aster2
astro
astrochron
astroFns
astsa
asympTest
asypow
AtelieR
ATmet
AtmRay
attfad
AUC
AUCRF
audio
audiolyzR
audit
autoencoder
automap
autopls
AutoSEARCH
avgrankoverlap
aws
AWS.tools
awsMethods
aylmer
B2Z
b6e6rl
babel
BaBooN
BACCO
backtest
BACprior
BAEssd

Visualizing Association Rules and Frequent Itemsets

A collection of statistical tools for biologists
Export R objects to several markup languages
Augmented SCRDA
Simulations for adaptive seamless designs
David Scott's ASH routines
A collection of functions for estimating centrographic statistics and computational geometries for spatial
point patterns
Aspects of Multivariables
Readable check functions to ensure code integrity
Easy pre and post assertions
Optimal pricing of assets with fixed expiry date
Statistical Tests for Genetic Association Studies
Aster Models
Aster Models
Astronomy Functions, Tools and Routines
An R Package for Astrochronology
Astronomy: time and position functions, misc. utilities
Applied Statistical Time Series Analysis
Asymptotic statistic
Calculate Power Utilizing Asymptotic Likelihood Ratio Methods
A GTK GUI for teaching basic concepts in statistical inference, and doing elementary bayesian tests
Advanced Tools for Metrology
Acoustic Traveltime Calculations for 1-D Atmospheric Models
Evaluation and comparison of expression data and GRNs
Threshold independent performance measures for probabilistic classifiers
Variable Selection with Random Forest and the Area Under the Curve
Audio Interface for R
audiolyzR: Give your data a listen
Bounds for Accounting Populations
An implementation of sparse autoencoder for automatic learning of representative features from
unlabeled data
Automatic interpolation package
pls regression with backward selection of predictors
General-to-Specific (GETS) Model Selection
Average Rank Overlap
Adaptive Weights Smoothing
R package to use Amazon Web Services
Class and Methods definitions for packages aws, adimpro, fmri, dwi
A generalization of Fisher's exact test
Bayesian Two-Zone Model
Adaptive differential evolution, b6e6rl variant
Ribosome profiling data analysis
Bayesian Bootstrap Predictive Mean Matching - Multiple and single imputation for discrete data
Bayesian Analysis of Computer Code Output (BACCO)
Exploring portfolio-based conjectures about financial instruments
Sensitivity of the Bayesian Adjustment for Confounding (BAC) algorithm to the choice of
hyperparameter omega
Bayesian Average Error approach to Sample Size Determination

bagRboostR
BalancedSampling
BaM
bamdit
BAMMtools
bams
bandit
BANOVA
barcode
bark
Barnard
bartMachine
BAS
BaSAR
base64
base64enc
baseline
basicspace
BASIX
BaSTA
batade
batch
BatchExperiments
BatchJobs
batchmeans
BayesBridge
bayesclust
BayesComm
bayescount
BayesCR
BayesDA
bayesDem
BayesFactor
bayesGARCH
bayesGDS
BayesGESM
Bayesianbetareg
BayesLCA
bayesLife
BayesLogit
bayesm
bayesMCClust
BayesMed
bayesmix
BayesNI
BayesPen
bayesPop

Ensemble bagging and boosting classifiers

Balanced and spatially balanced sampling
Functions and datasets for books by Jeff Gill
Bayesian Meta-Analysis of diagnostic test data
Analysis and visualization of macroevolutionary dynamics on phylogenetic trees
Breakpoint annotation model smoothing
Functions for simple A/B split test and multi-armed bandit analysis
Hierarchical Bayesian ANOVA Models
Barcode distribution plots
Bayesian Additive Regresssion Kernels
Barnard's Unconditional Test
Bayesian Additive Regression Trees
Bayesian Model Averaging using Bayesian Adaptive Sampling
Bayesian Spectrum Analysis in R
Base 64 encoder/decoder
Tools for base64 encoding
Baseline Correction of Spectra
A Package to Recover a Basic Space from Issue Scales
BASIX: An efficient C/C++ toolset for R
A package for estimating age-specific survival from incomplete capture-recapture/recovery data
HTML reports and so on
Batching Routines in Parallel and Passing Command-Line Arguments to R
Statistical experiments on batch computing clusters
Batch computing with R
Consistent Batch Means Estimation of Monte Carlo Standard Errors
Bridge Regression
Tests/Searches for significant clusters in genetic data
Bayesian community ecology analysis
Power calculations and Bayesian analysis of count distributions and FECRT data using MCMC
Bayesian analysis of censored linear regression models with scale mixtures of normal (SMN)
distributions
Functions and Datasets for the book "Bayesian Data Analysis"
Graphical User Interface for bayesTFR, bayesLife and bayesPop
Computation of Bayes factors for common designs
Bayesian Estimation of the GARCH(1,1) Model with Student-t Innovations
Functions to implement Generalized Direct Sampling
Bayesian Analysis of Generalized Elliptical Semiparametric Models
Bayesian Beta regression: joint mean and precision modeling
Bayesian Latent Class Analysis
Bayesian Projection of Life Expectancy
Logistic Regression
Bayesian Inference for Marketing/Micro-econometrics
Mixtures-of-Experts Markov Chain Clustering and Dirichlet Multinomial Clustering
Default Bayesian hypothesis tests for correlation, partial correlation, and mediation
Bayesian Mixture Models with JAGS
BayesNI: Bayesian Testing Procedure for Noninferiority with Binary Endpoints
Bayesian Penalized Credible Regions
Probabilistic Population Projection

bayespref
bayesQR
BayesQTLBIC
bayess
BayesSAE
BayesSingleSub
bayesSurv
bayesTFR
Bayesthresh
BayesValidate
BayesVarSel
BayesX
BayesXsrc
BayHap
BayHaz
BaylorEdPsych
BaySIC
BAYSTAR
BB
bbefkr
bbemkr
BBmisc
bbmle
BBMM
bbo
BBRecapture
bc3net
BCA
BCBCSF
BCDating
BCE
BCEA
BCEs0
Bchron
Bclim
bclust
bcool
bcp
bcpa
bcpmeta
bcrm
bcv
bda
BDgraph
bdoc
bdpv

Hierarchical Bayesian analysis of ecological count data

Bayesian quantile regression
Bayesian multi-locus QTL analysis based on the BIC criterion
Bayesian Essentials with R
Bayesian Analysis of Small Area Estimation
Computation of Bayes factors for interrupted time-series designs
Bayesian Survival Regression with Flexible Error and Random Effects Distributions
Bayesian Fertility Projection
Bayesian thresholds mixed-effects models for categorical data
BayesValidate Package
Bayesian Variable selection in Linear Models
R Utilities Accompanying the Software Package BayesX
R Package Distribution of the BayesX C++ Sources
Bayesian analysis of haplotype association using Markov Chain Monte Carlo
R Functions for Bayesian Hazard Rate Estimation
R Package for Baylor University Educational Psychology Quantitative Courses
Bayesian Analysis of Significantly Mutated Genes in Cancer
On Bayesian analysis of Threshold autoregressive model (BAYSTAR)
Solving and Optimizing Large-Scale Nonlinear Systems
Bayesian bandwidth estimation and semi-metric selection for the functional kernel regression with
unknown error density
Bayesian bandwidth estimation for multivariate kernel regression with Gaussian error
Miscellaneous helper functions for B. Bischl
Tools for general maximum likelihood estimation
Brownian bridge movement model
Biogeography-Based Optimization
Bayesian Behavioural Capture-Recapture Models
BC3NET
Business and Customer Analytics
Bias-corrected Bayesian Classification with Selected Features
Business Cycle Dating and Plotting Tools - BCDating
Bayesian composition estimator: estimating sample (taxonomic) composition from biomarker data
Bayesian Cost Effectiveness Analysis
Bayesian models for cost-effectiveness analysis in the presence of structural zero costs
Radiocarbon dating, age-depth modelling, relative sea level rate estimation, and non-parametric phase
modelling
Bayesian Palaeoclimate Reconstruction from Pollen
Bayesian clustering using spike-and-slab hierarchical model, suitable for clustering high-dimensional
data
Bringing to light significant Columns correlated with Organism Labels
A Package for Performing a Bayesian Analysis of Change Point Problems
Behavioral change point analysis of animal movement
Bayesian Multiple Changepoint Detection Using Metadata
Bayesian continual reassessment method (CRM) designs for Phase I dose-finding trials
Cross-Validation for the SVD (Bi-Cross-Validation)
Density Estimation for Binned/Weighted Data
Graph estimation based on birth-death MCMC approach
Bayesian Discrete Ordered Classification of DNA Barcodes
Inference and design for predictive values in binary diagnostic tests

bdsmatrix
bdvis
bdynsys
beadarrayFilter
beadarrayMSV
beanplot
bear
BEDASSLE
beepr
beeswarm
benchden
benchmark
Benchmarking
benford.analysis
BenfordTests
bentcableAR
BEQI2
ber
Bergm
BerlinData
berryFunctions
Bessel
BEST
bestglm
betafam
betapart
betaper
betareg
betategarch
bethel
bezier
bfa
bfast
bfp
bgeva
BGLR
bgmm
BGPhazard
BGSIMD
BH
Bhat
BHH2
biasbetareg
BiasedUrn
bibtex
biclust
BiDimRegression

Routines for Block Diagonal Symmetric matrices

Biodiversity Data Visualizations
Bayesian Dynamical System Model
Bead filtering for Illumina bead arrays
Analysis of Illumina BeadArray SNP data including MSV markers
Visualization via Beanplots (like Boxplot/Stripchart/Violin Plot)
Average bioequivalence and bioavailability data analysis tool
Disentangles the effects of geographic and ecological isolation on genetic differentiation
Easily Play Notification Sounds on any Platform
The bee swarm plot, an alternative to stripchart
28 benchmark densities from Berlinet/Devroye (1994)
Benchmark Experiments Toolbox
Benchmark and frontier analysis using DEA and SFA
Benford Analysis for data validation and forensic analytics
Statistical Tests for Evaluating Conformity to Benford's Law
Bent-Cable Regression for Independent Data or Autoregressive Time Series
Benthic Ecosystem Quality Index 2
Batch Effects Removal
Bayesian analysis for exponential random graph models
Easy access to Berlin related data
function collection related to hydrology, zooming and shapefiles
Bessel Bessel Functions Computations and Approximations
Bayesian Estimation Supersedes the t-Test
Best Subset GLM
Detecting rare variants for quantitative traits using nuclear families
Partitioning beta diversity into turnover and nestedness components
Functions to incorporate taxonomic uncertainty on multivariate analyses of ecological data
Beta Regression
Simulation, estimation and forecasting of Beta-Skew-t-EGARCH models
Bethel's algorithm
Bezier Curve and Spline Toolkit
Bayesian Factor Analysis
Breaks For Additive Season and Trend (BFAST)
Bayesian Fractional Polynomials
Binary Generalized Extreme Value Additive Models
Bayesian Generalized Linear Regression
Gaussian Mixture Modeling algorithms. Including the belief-based mixture modeling
Markov beta and gamma processes for modeling hazard rates
Block Gibbs Sampler with Incomplete Multinomial Distribution
Boost C++ header files
General likelihood exploration
Useful Functions for Box, Hunter and Hunter II
Bias correction of the parameter estimates of the beta regression model
Biased Urn model distributions
bibtex parser
BiCluster Algorithms
Calculates the bidimensional regression between two 2D configurations

bifactorial
BIFIEsurvey
bigalgebra
biganalytics
bigdata
bigGP
biglars
biglm
bigmemory
bigmemory.sri
bigml
bigpca
bigrf
bigRR
bigsplines
bigtabulate
BigTSP
bilan
bild
bimetallic
binda
bindata
bingat
binGroup
binhf
binMto
BinNor
binom
binomialcftp
binomlogit
binomSamSize
binomTools
binr
binseqtest
bio.infer
Biodem
BiodiversityR
BioGeoBEARS
Biograph
biom
BioMark
BiomarkeR
biomod2
bionetdata
biopara
BioPhysConnectoR
bioPN

Inferences for bi- and trifactorial trial designs

Some Tools for Survey Statistics in Educational Assessment, Developed by BIFIE
BLAS routines for native R matrices and big.matrix objects
A library of utilities for big.matrix objects of package bigmemory
Big Data Analytics
Distributed Gaussian process calculations
Scalable Least-Angle Regression and Lasso
bounded memory linear and generalized linear models
Manage massive matrices with shared memory and memory-mapped files
A shared resource interface for Bigmemory Project packages
R bindings for the BigML API
PCA, transpose and multicore functionality for big.matrix objects
Big Random Forests: Classification and Regression Forests for Large Data Sets
Generalized Ridge Regression (with special advantage for p >> n cases)
Big Splines (smoothing splines for large samples)
table-, tapply-, and split-like functionality for matrix and big.matrix objects
Top Scoring Pair based methods for classification
Bilan water balance model
bild: a package for BInary Longitudinal Data
Power for SNP analyses using silver standard cases
Multi-Class Discriminant Analysis using Binary Predictors
Generation of Artificial Binary Data
Binary Graph Analysis Tools
Evaluation and experimental design for binomial group testing
Haar-Fisz functions for binomial data
Asymptotic simultaneous confidence intervals for many-to-one comparisons of proportions
Simultaneous generation of multivariate binary and normal variates
Binomial Confidence Intervals For Several Parameterizations
Generates binomial random numbers via the coupling from the past algorithm
Efficient MCMC for Binomial Logit Models
Confidence intervals and sample size determination for a binomial proportion under simple random
sampling and pooled sampling
Performing diagnostics on binomial regression models
Cut Numeric Values Into Evenly Distributed Groups
Exact Binary Sequential Designs and Analysis
Predict environmental conditions from biological observations
Biodemography functions
GUI for biodiversity, suitability and community ecology analysis
BioGeography with Bayesian (and Likelihood) Evolutionary Analysis in R Scripts
Explore life histories
An interface package (beta) for the BIOM file format
Find biomarkers in two-class discrimination problems
Paired (pBI) and Unpaired Biomarker Identifier (uBI) including a method to infer networks
Ensemble platform for species distribution modeling
Biological and chemical data networks
Self-contained parallel system for R
BioPhysConnectoR
Simulation of deterministic and stochastic biochemical reaction networks using Petri Nets

biOps
biOpsGUI
bios2mds
BioStatR
biotools
bipartite
biplotbootGUI
BiplotGUI
BIPOD
birdring
birk
bisectr
BiSEp
bisoreg
bit
bit64
bitops
bivarRIpower
biwavelet
biwt
bizdays
BlakerCI
Blaunet
BLCOP
blender
blighty
blkergm
blm
blme
blockcluster
blockmatrix
BlockMessage
blockmodeling
blockrand
blockTools
blowtorch
BLR
BMA
BMAmevt
bmd
bmem
BMhyd
Bmix
bmk
bmmix
BMN
bmp

Image processing and analysis

GUI for Basic image operations
From BIOlogical Sequences to MultiDimensional Scaling
Initiation la Statistique avec R
Tools for Biometry and Applied Statistics in Agricultural Science
Visualising bipartite networks and calculating some (ecological) indices
Bootstrap on Classical Biplots
Interactive Biplots in R
BIPOD (Bayesian Inference for Partially Observed diffusions)
Methods to analyse ring re-encounter data
MA Birk functions
Tools to find bad commits with git bisect
Toolkit to identify synthetic lethality and cell line resistance relationships based on bimodality in gene
expression data
Bayesian Isotonic Regression with Bernstein Polynomials
A class for vectors of 1-bit booleans
A S3 class for vectors of 64bit integers
Bitwise Operations
Sample size calculations for bivariate longitudinal data
Conduct univariate and bivariate wavelet analyses
Functions to compute the biweight mean vector and covariance & correlation matrices
Functions to handle business days calculations
Blaker's binomial confidence limits
Calculate and Analyze Blau statuses for measuring social distance
Black-Litterman and copula-opinion pooling frameworks
Analyze biotic homogenization of landscapes
United Kingdom coastlines
Fitting block ERGM given the block structure on social networks
Binomial linear and linear-expit regression
Bayesian Linear Mixed-Effects Models
Co-Clustering package for binary, contingency, continuous and categorical data-sets
blockmatrix: Tools to solve algebraic systems with partitioned matrices
Creates strings that show a text message in 8 by 8 block letters
An R package for Generalized and classical blockmodeling of valued networks
Randomization for block random clinical trials
Block, assign, and diagnose potential interference in randomized experiments
Constrained optimization via stochastic gradient descent
Bayesian Linear Regression
Bayesian Model Averaging
Multivariate Extremes: Bayesian estimation of the spectral measure
Benchmark dose analysis for dose-response data
Mediation analysis with missing data using bootstrap
PCM for Hybridization
Bayesian Sampling for Stick-breaking Mixtures
MCMC diagnostics package
Bayesian multinomial mixture
The pseudo-likelihood method for pairwise binary markov networks
Read Windows Bitmap (BMP) images

bmrm
BMS
bnlearn
BNPdensity
bnpmr
boa
BOG
boilerpipeR
bold
Bolstad
Bolstad2
boolean3
BoolNet
Boom
BoomSpikeSlab
boostr
boostSeq
boot
bootES
bootfs
bootLR
BootPR
bootRes
bootruin
bootspecdens
bootStepAIC
bootstrap
Boruta
boss
BoSSA
boussinesq
boxplotdbl
bpca
bpcp
bPeaks
bpkde
bqtl
BradleyTerry2
BrailleR
brainR
brainwaver
branchLars
breakage
breakpoint
bReeze

Bundle Methods for Regularized Risk Minimization Package

Bayesian Model Averaging Library
Bayesian network structure learning, parameter learning and inference
Ferguson-Klass type algorithm for posterior normalized random measures
Bayesian monotonic nonparametric regression
Bayesian Output Analysis Program (BOA) for MCMC
Bacterium and virus analysis of Orthologous Groups (BOG) is a package for identifying differentially
regulated genes in the light of gene functions
Interface to the boilerpipe Java library by Christian Kohlschutter (http://code.google.com/p/boilerpipe/)
Interface to Bold Systems API
Bolstad functions
Bolstad functions
Boolean Binary Response Models
Generation, reconstruction, simulation and analysis of synchronous, asynchronous, and probabilistic
Boolean networks
Bayesian Object Oriented Modeling
MCMC for spike and slab regression
A modular framework to bag or boost any estimation procedure
Optimized GWAS cohort subset selection for resequencing studies
Bootstrap Functions (originally by Angelo Canty for S)
Bootstrap Effect Sizes
Use multiple feature selection algorithms to derive robust feature sets for two or multiclass classification
problems
Bootstrapped confidence intervals for (negative) likelihood ratio tests
Bootstrap Prediction Intervals and Bias-Corrected Forecasting
Bootstrapped Response and Correlation Functions
A bootstrap test for the probability of ruin in the classical risk process
Testing equality of spectral densities
Bootstrap stepAIC
Functions for the Book "An Introduction to the Bootstrap"
A wrapper algorithm for all-relevant feature selection
Boosted One-Step Statistics: Fast and accurate approximations for GLM, GEE and Mixed models for
use in GWAS
a Bunch of Structure and Sequence Analysis
Analytic Solutions for (ground-water) Boussinesq Equation
Double Box Plot for Two-Axes Correlation
Biplot of Multivariate Data Based on Principal Components Analysis
Beta Product Confidence Procedure for Right Censored Data
bPeaks: an intuitive peak-calling strategy to detect transcription factor binding sites from ChIP-seq data
in small eukaryotic genomes
Back-Projected Kernel Density Estimation
Bayesian QTL mapping toolkit
Bradley-Terry Models
Improved access for blind useRs
Helper functions to misc3d and rgl packages for brain imaging
Basic wavelet analysis of multivariate time series with a visualisation and parametrisation using graph
theory
Cost-efficient Variable Selection
SICM pipette tip geometry estimation
An R Package for Multiple Break-Point Detection via the Cross-Entropy Method
Functions for wind resource assessment

brew
brglm
bride
brnn
Brobdingnag
broman
Brq
BRugs
BSagri
BSDA
bshazard
BsMD
bspec
bspmma
BSquare
BSSasymp
bst
bstats
bsts
BTYD
bujar
BurStFin
BurStMisc
bursts
bvenn
bvls
bvpSolve
BVS
c060
c3net
C50
ca
cabootcrs
cacher
cacheSweave
cacIRT
CaDENCE
CADFtest
cAIC4
Cairo
cairoDevice
CALIBERrfimpute
calibrate
calibrator
CALINE3
calmate
CAMAN

Templating Framework for Report Generation

Bias reduction in binomial-response generalized linear models
Brier score decomposition of probabilistic forecasts for binary events
brnn (Bayesian regularization for feed-forward neural networks)
Very large numbers in R
Karl Broman's R code
Bayesian analysis of quantile regression models
R interface to the OpenBUGS MCMC software
Statistical methods for safety assessment in agricultural field trials
Basic Statistics and Data Analysis
Nonparametric Smoothing of the Hazard Function
Bayes Screening and Model Discrimination
Bayesian spectral inference
bspmma: Bayesian Semiparametric Models for Meta-Analysis
Bayesian Simultaneous Quantile Regression
Asymptotic covariance matrices of some BSS mixing and unmixing matrix estimates
Gradient Boosting
Ordinary Regression Analysis with R
Bayesian structural time series
Implementing Buy 'Til You Die Models
Buckley-James Regression for Survival Data with High-Dimensional Covariates
Burns Statistics Financial
Burns Statistics miscellaneous
Markov model for bursty behavior in streams
A Simple alternative to proportional Venn diagrams
The Stark-Parker algorithm for bounded-variable least squares
Solvers for boundary value problems of ordinary differential equations
Bayesian Variant Selection: Bayesian Model Uncertainty Techniques for Genetic Association Studies
Extended Inference for Lasso and Elastic-Net Regularized Cox and Generalized Linear Models
Infering large-scale gene networks with C3NET
C5.0 Decision Trees and Rule-Based Models
Simple, Multiple and Joint Correspondence Analysis
Bootstrap Confidence Regions for Correspondence Analysis
Tools for caching and distributing statistical analyses
Tools for caching Sweave computations
Classification accuracy and consistency under Item Response Theory
Conditional Density Estimation Network Construction and Evaluation
This package performs the CADF unit root test proposed in Hansen (1995)
Conditional Akaike information criterion for lme4
R graphics device using cairo graphics library for creating high-quality bitmap (PNG, JPEG, TIFF),
vector (PDF, SVG, PostScript) and display (X11 and Win32) output
Cairo-based cross-platform antialiased graphics device driver
Multiple imputation using MICE and Random Forest
Calibration of Scatterplot and Biplot Axes
Bayesian calibration of complex computer codes
R interface to Fortran 77 implementation of CALINE3
CalMaTe - Improved allele-specific copy number of SNP arrays for downstream segmentation
Finite Mixture Models and meta-analysis tools - based on C.A.MAN

camel
cancerTiming
candisc
cape
caper
capm
capme
capushe
capwire
car
CARBayes
carcass
cardidates
care
CARE1
caret
caribou
CarletonStats
caroline
CARramps
CARrampsOcl
caschrono
caseMatch
cat
catdata
CatDyn
catenary
cati
catIrt
catnet
caTools
catR
catspec
CausalGAM
causalsens
Causata
CAvariants
cba
CBPS
CCA
CCAGFA
ccaPP
cccd
ccChooser
cccrm
ccda
ccgarch

Calibrated Machine Learning

Estimation of temporal ordering of cancer abnormalities
Visualizing Generalized Canonical Discriminant and Canonical Correlation Analysis
Combined analysis of pleiotropy and epistasis
Comparative Analyses of Phylogenetics and Evolution in R
Companion Animal Population Management
Covariate Adjusted Precision Matrix Estimation
Capushe, data-driven slope estimation and dimension jump
Estimates population size from non-invasive sampling
Companion to Applied Regression
Spatial areal unit modelling
Estimation of the number of fatalities from carcass searches
Identification of Cardinal Dates in Ecological Time Series
High-Dimensional Regression and CAR Score Variable Selection
Statistical package for population size estimation in capture-recapture models
Classification and Regression Training
Estimation of caribou abundance based on large scale aggregations monitored by radio telemetry
Functions For Statistics Classes At Carleton College
A Collection of Database, Data Structure, Visualization, and Utility Functions for R
Reparameterized and marginalized posterior sampling for conditional autoregressive models
Reparameterized and marginalized posterior sampling for conditional autoregressive models, OpenCL
implementation
Sries temporelles avec R - Mthodes et cas
Identify similar cases for qualitative case studies
Analysis of categorical-variable datasets with missing values
Categorical Data
Fishery Stock Assessment by Catch Dynamic Models
Fits a catenary to given points
Community Assembly by Traits: Individuals and beyond
An R Package for Simulating IRT-Based Computerized Adaptive Tests
Categorical Bayesian Network Inference
Tools: moving window statistics, GIF, Base64, ROC AUC, etc
Procedures to generate IRT adaptive tests (CAT)
Special models for categorical variables
Estimation of Causal Effects with Generalized Additive Models
Selection Bias Approach to Sensitivity Analysis for Causal Effects
Analysis utilities for binary classification and Causata users
Correspondence Analysis Variants
Clustering for Business Analytics
R Package for Covariate Balancing Propensity Score
Canonical correlation analysis
Bayesian canonical correlation analysis and group factor analysis
(Robust) canonical correlation analysis via projection pursuit
Class Cover Catch Digraphs
Developing a core collections
CCC-RM
Combined Cluster and Discriminant Analysis
Conditional Correlation GARCH models

cclust
CCM
CCMnet
CCP
CCpop
CCTpack
cda
cdb
CDFt
CDLasso
CDM
CDNmoney
CDVine
cec2005benchmark
cec2013
celestial
CellularAutomaton
cellVolumeDist
cem
censNID
censReg
CensRegMod
CePa
cepp
cfa
CfEstimateQuantiles
CFL
cg
cgam
cgAUC
cgdsr
cggd
cgh
cghFLasso
cghseg
cgwtools
ChainLadder
changeLOS
changepoint
ChargeTransport
CHAT
CHCN
cheb
chebpol
CheckDigit
checkmate

Convex Clustering Methods and Clustering Indexes

Correlation classification method (CCM)
Simulate Congruence Class Model for Networks
Significance Tests for Canonical Correlation Analysis (CCA)
One and two locus GWAS of binary phenotype with case-control-population design
Cultural Consensus Theory applications to data
Coupled dipole approximation of light scattering by clusters of nanoparticles
Reading and Writing Constant DataBases
Statistical downscaling through CDF-transform
Coordinate Descent Algorithms for Lasso Penalized L1, L2, and Logistic Regression
Cognitive Diagnosis Modeling
Components of Canadian Monetary and Credit Aggregates
Statistical inference of C- and D-vine copulas
Benchmark for the CEC 2005 Special Session on Real-Parameter Optimization
Benchmark functions for the Special Session and Competition on Real-Parameter Single Objective
Optimization at CEC-2013
Collection of common astronomical conversion routines
One-Dimensional Cellular Automata
Functions to fit cell volume distributions and thereby estimate cell growth rates and division times
Coarsened Exact Matching
censored NID samples
Censored Regression (Tobit) Models
Fitting Normal and Student-t censored regression model
Centrality-based pathway enrichment
Context Driven Exploratory Projection Pursuit
Analysis of configuration frequencies (CFA)
Estimate quantiles using any order Cornish-Fisher expansion
Compensatory Fuzzy Logic
Comparison of groups
Constrained Generalized Additive Model
Calculate AUC-type measure when gold standard is continuous and the corresponding optimal linear
combination of variables with respect to it
R-Based API for accessing the MSKCC Cancer Genomics Data Server (CGDS)
Continuous Generalized Gradient Descent
Microarray CGH analysis using the Smith-Waterman algorithm
Detecting hot spot on CGH array data with fused lasso regression
Segmentation methods for array CGH analysis
My collection of useful tools
Statistical methods for the calculation of outstanding claims reserves in general insurance
Change in LOS
An R package for changepoint analysis
Charge Transfer Rates and Charge Carrier Mobilities
Clonal Heterogeneity Analysis Tool
Canadian Historical Climate Network
Discrete Linear Chebyshev Approximation
Multivariate Chebyshev interpolation
Calculate and verify check digits
Fast and versatile argument checks

cheddar
chemCal
chemometrics
ChemometricsWithR
ChemometricsWithRDat
a
chemosensors
ChemoSpec
cherry
chillR
chipPCR
chngpt
CHNOSZ
ChoiceModelR
choplump
chords
choroplethr
chromoR
chron
CHsharp
CIDnetworks
CIFsmry
cin
CINID
CINOEDV
CircE
circlize
CircNNTSR
CircStats
circular
cit
CITAN
citbcmst
citccmst
CityPlot
Ckmeans.1d.dp
cladoRcpp
CLAG
class
classGraph
classifly
classify
classInt
clere
clhs
ClickClust
clickstream

Analysis and visualisation of ecological communities

Calibration functions for analytical chemistry
Multivariate Statistical Analysis in Chemometrics
Chemometrics with R - Multivariate Data Analysis in the Natural Sciences and Life Sciences
Data for package ChemometricsWithR
A tool for the design of synthetic experiments in machine olfaction
Exploratory Chemometrics for Spectroscopy
Multiple testing methods for exploratory research
Statistical methods for phenology analysis in temperate fruit trees
Toolkit of helper functions to pre-process amplification data
Change Point Logistic Regression
Chemical Thermodynamics and Activity Diagrams
Choice Modeling in R
Choplump tests
Estimation in respondent driven samples
Functions to simplify the creation of choropleths (thematic maps) in R
Analysis of chromosomal interactions data (correction, segmentation and comparison)
Chronological objects which can handle dates and times
Choi and Hall Clustering in 3d
Generative models for complex networks with conditionally independent dyadic structure
Weighted summary of cumulative incidence functions
Causal Inference for Neuroscience
Curculionidae INstar IDentification
Co-Information based N-Order Epistasis Detector and Visualizer
Circumplex models Estimation
Circular visualization in R
CircNNTSR: An R package for the statistical analysis of circular data using nonnegative trigonometric
sums (NNTS) models
Circular Statistics, from "Topics in circular Statistics" (2001)
Circular Statistics
Causal Inference Test
CITation ANalysis toolpack
CIT Breast Cancer Molecular SubTypes Prediction
CIT Colon Cancer Molecular SubTypes Prediction
Visualization of structure and contents of a database
Optimal k-means clustering for one-dimensional data
C++ implementations of phylogenetic cladogenesis calculations
An unsupervised non hierarchical clustering algorithm handling biological data
Functions for Classification
Construct Graphs of S4 Class Hierarchies
Explore classification models in high dimensions
Classification Accuracy and Consistency under IRT models
Choose univariate class intervals
CLERE methodology for simultaneous variables clustering and regression
Conditioned Latin Hypercube Sampling
Model-Based Clustering of Categorical Sequences
Analyzes clickstreams based on Markov chains

climdex.pcic
clime
clinfun
clinsig
clinUtiDNA
clogitL1
cloudUtil
clpAPI
CLSOCP
clue
clues
cluster
cluster.datasets
clusterCrit
clusterfly
clustergas
clusterGeneration
clusterGenomics
clusterPower
clusterRepro
clusterSim
clusteval
clusthaplo
clustMD
ClustOfVar
clustrd
clustsig
ClustVarLV
clustvarsel
clv
clValid
cmaes
CMC
CMF
cmm
CMPControl
cmprsk
cmrutils
cna
cncaGUI
CNprep
CNVassoc
CNVassocData
coalescentMCMC
coarseDataTools
COBRA
cobs

PCIC implementation of Climdex routines

Constrained L1-minimization for Inverse (covariance) Matrix Estimation
Clinical Trial Design and Data Analysis Functions
Clinical significance functions
Clinical Utility of DNA Testing
Fitting exact conditional logistic regression with lasso and elastic net penalties
Cloud Util Plots
R Interface to C API of COIN-OR Clp
A smoothing Newton method SOCP solver
Cluster ensembles
Clustering Method Based on Local Shrinking
Cluster Analysis Extended Rousseeuw et al
Cluster Analysis Data Sets
Clustering Indices
Explore clustering interactively using R and GGobi
A hierarchical clustering method based on genetic algorithms
random cluster generation (with specified degree of separation)
Identifying clusters in genomics data by recursive partitioning
Power calculations for cluster-randomized and cluster-randomized crossover trials
Reproducibility of gene expression clusters
Searching for optimal clustering procedure for a data set
Evaluation of Clustering Algorithms
Clustering of haplotypes
Model based clustering for mixed data
Clustering of variables
Methods for joint dimension reduction and clustering
Significant Cluster Analysis
Clustering of variables around Latent Variables
Variable Selection for Model-Based Clustering
Cluster Validation Techniques
Validation of Clustering Results
Covariance Matrix Adapting Evolutionary Strategy
Cronbach-Mesbah Curve
Collective matrix factorization
Categorical Marginal Models
Control Charts for Conway-Maxwell-Poisson Distribution
Subdistribution Analysis of Competing Risks
Misc Functions of the Center for the Mathematical Research
Coincidence Analysis (CNA)
Canonical Non-symmetrical Correspondence Analysis in R
pre-process DNA copy number (CN) data for detection of CN events
Association analysis of CNV data
Example data sets for association analysis of CNV data
MCMC Algorithms for the Coalescent
A collection of functions to help with analysis of coarsely observed data
Nonlinear Aggregation of Predictors
COBS Constrained B-splines (Sparse matrix based)

cobs99
CoClust
cocor
cocorresp
cocron
coda
codadiags
codep
codetools
coefficientalpha
coefplot
coexist
CoImp
coin
CoinMinD
colbycol
cold
CollocInfer
coloc
colorfulVennPlot
colorRamps
colorspace
colortools
colourlovers
comato
combinat
CombinS
CombMSC
comclim
commandr
CommonJavaJars
CommonTrend
CommunityCorrelogra
m
comorbidities
Comp2ROC
compactr
compare
compareGroups
compareODM
CompareTests
comparison
compeir
CompGLM
compHclust
complex.surv.dat.sim

Constrained B-splines outdated 1999 version

Copula based cluster analysis
Comparing correlations
Co-correspondence analysis methods
Statistical comparisons of two or more alpha coefficients
Output analysis and diagnostics for MCMC
Markov chain Monte Carlo burn-in based on "bridge" statistics
Multiscale Codependence Analysis
Code Analysis Tools for R
Robust Cronbach's alpha with missing and non-normal data
Plots Coefficients from Fitted Models
Species coexistence modeling and analysis
Copula based imputation method
Conditional Inference Procedures in a Permutation Test Framework
Simultaneous Confidence Interval for Multinomial Proportion
Read big text files column by column, sometimes much bigger than available RAM, into R
cold: a package for Count Longitudinal Data
Collocation Inference for Dynamic Systems
Colocalisation tests of two genetic traits
Plot and add custom coloring to Venn diagrams for 2-dimensional, 3-dimensional and 4-dimensional
data
Builds color tables
Color Space Manipulation
Tools for colors in a Hue-Saturation-Value (HSV) color model
R client for the COLOURlovers API
Analysis of Concept Maps
combinatorics utilities
Constructions method of rectangular PBIB and rectangular right angular PBIB(m) (m= 4,5 and 7)
designs
Combined Model Selection Criteria
Community climate statistics
Command pattern in R
Useful libraries for building a Java based GUI under R
Extract and plot common trends from a cointegration system. Calculate P-value for Johansen Statistics
Ecological Community Correlogram
Categorizes ICD-9-CM codes based on published comorbidity indices
Compare two ROC curves that intersect
Creates empty plots with compact axis notation
Comparing Objects for Differences
Descriptive analysis by groups
comparison of medical forms in CDISC ODM format
Estimate diagnostic accuracy (sensitivity, specificity, etc) and agreement statistics when one test is
conducted on only a subsample of specimens
Multivariate likelihood ratio calculation and evaluation
Event-specific incidence rates for competing risks data
Conway-Maxwell-Poisson GLM and distribution functions
Complementary Hierarchical Clustering
Simulation of complex survival data

CompLognormal
compoisson
COMPoissonReg
compositions
compound.Cox
Compounding
CompQuadForm
CompRandFld
compute.es
ConConPiWiFun
concor
concreg
cond
condGEE
condmixt
CondReg
coneproj
conf.design
confReg
confreq
conicfit
conics
conjoint
ConjointChecks
ConnMatTools
CONOR
CONORData
constrainedKriging
contfrac
conting
contrast
ConvCalendar
ConvergenceConcepts
convexHaz
cooccur
COP
COPASutils
copBasic
copula
copulaedas
CopulaRegression
CopyDetect
corclass
corcounts
CORE
CORElearn
corHMM

Functions for actuarial scientists

Conway-Maxwell-Poisson Distribution
Conway-Maxwell Poisson (COM-Poisson) Regression
Compositional Data Analysis
Regression estimation based on the compound covariate method under the Cox proportional hazard
model
Computing Continuous Distributions
Distribution function of quadratic forms in normal variables
Composite-likelihood based Analysis of Random Fields
Compute Effect Sizes
This package contains an implementation of continuous convex piecewise (linear and quadratic)
functions
Concordance
Concordance regression
Approximate conditional inference for logistic and loglinear models
Parameter estimation in conditional GEE for recurrent event gap times
Conditional Density Estimation with Neural Network Conditional Mixtures
Condition Number Regularized Covariance Estimation
Primal or Dual Cone Projections with Routines for Constrained Regression
Construction of factorial designs
Confidence Estimators for Individual Regression Predictions
Configural Frequencies Analysis Using Loglinear Modeling
Algorithms for fitting circles, ellipses and conics based on the work by Prof. Nikolai Chernov
Plot Conics
Conjoint analysis package
A package to check the cancellation axioms of conjoint measurement
Tools for working with connectivity matrices
CONOR
CONORData
Constrained, covariance-matching constrained and universal point or block kriging
Continued fractions
Bayesian analysis of contingency tables
A collection of contrast methods
Converts dates between calendars
Seeing convergence concepts in action
Nonparametric MLE/LSE of convex hazard
Probabilistic Species Co-occurrence Analysis in R
Variables selection for index models via correlation pursuit
Tools for processing COPAS large-particle flow cytometer data
Basic Theoretical Copula, Empirical Copula, and Various Utility Functions
Multivariate Dependence with Copulas
Estimation of Distribution Algorithms Based on Copulas
Bivariate Copula Based Regression Models
Computing Statistical Indices to Detect Answer Copying on Multiple-Choice Tests
Correlational Class Analysis
Generate correlated count random variables
Cores of Recurrent Events
Classification, regression, feature evaluation and ordinal evaluation
Analysis of binary character evolution

CORM
corpcor
corpora
CorrBin
CorReg
correlate
Correlplot
corrgram
corrplot
corrsieve
corTools
COSINE
cosmoFns
cosmosR
cosso
costat
cotrend
COUNT
countrycode
CountsEPPM
covLCA
covreg
covRobust
CovSel
covTest
CoxBoost
coxme
coxphf
coxphw
CoxRidge
coxrobust
cpa
cpca
CPE
CpGassoc
CPHshape
cpk
cplexAPI
cplm
CPMCGLM
Cprob
CR
CRAC
crackR
cramer
crank
crantastic

The Clustering of Regression Models Method

Efficient Estimation of Covariance and (Partial) Correlation
Statistics and data sets for corpus frequency data
Nonparametrics with clustered binary and multinomial data
Linear regression based on linear structure between covariates
Multivariate Data Generation by Permutation
A collection of functions for graphing correlation matrices
Plot a correlogram
Visualization of a correlation matrix
CorrSieve
Tools for processing data after a Genome Wide Association Study
COndition SpecIfic sub-NEtwork
Functions for cosmological distances, times, luminosities, etc
cosmosR
Fit Regularized Nonparametric Regression Models Using COSSO Penalty
Time series costationarity determination
Consistant Cotrend Rank Selection
Functions, data and code for count data
Convert country names and country codes
Mean and variance modeling of count data
Latent Class Models with Covariate Effects on Underlying and Measured Variables
A simultaneous regression model for the mean and covariance
Robust Covariance Estimation via Nearest Neighbor Cleaning
Model-Free Covariate Selection
Computes covariance test for adaptive linear modelling
Cox models by likelihood based boosting for a single survival endpoint or competing risks
Mixed Effects Cox Models
Cox regression with Firth's penalized likelihood
Weighted Estimation in Cox Regression
Cox models with dynamic ridge penalties
Robust Estimation in Cox Model
Confirmatory Path Analysis through the d-sep tests
Methods to perform Common Principal Component Analysis (CPCA)
Concordance Probability Estimates in Survival Analysis
Association between Methylation and a phenotype of interest
Find the maximum likelihood estimator of the shape constrained hazard baseline and the effect
parameters in the Cox proportional hazards model
Clinical Pharmacokinetics
R Interface to C API of IBM ILOG CPLEX
Compound Poisson linear models
Correction of the pvalue after multiple coding
Conditional probability function of a competing event
Power Calculation for Weighted Log-Rank Tests in Cure Rate Models
Cosmology R Analysis Code
Probabilistic damage tolerance analysis for fatigue cracking of metallic aerospace structures
Multivariate nonparametric Cramer-Test for the two-sample-problem
Completing ranks
Various R tools for http://crantastic.org/

crawl
crblocks
crch
CreditMetrics
CRF
crimCV
CRM
crmn
crn
crossdes
crossmatch
crossval
crp.CSFP
crqa
crrSC
crrstep
crs
CRTSize
CrypticIBDcheck
csampling
cSFM
cshapes
cslogistic
csn
csound
CSS
csSAM
cstar
csvread
cts
CTT
ctv
cubature
cubfits
Cubist
cudaBayesreg
cudaBayesregData
cudia
CUMP
cumplyr
cumSeg
currentSurvival
curvetest
curvHDR
cusp
cutoffR

Fit continuous-time correlated random walk models to animal movement data

Categorical Randomized Block Data Analysis
Censored Regression with Conditional Heteroscedasticity
Functions for calculating the CreditMetrics risk model
CRF - Conditional Random Fields
Group-Based Modelling of Longitudinal Data
Continual Reassessment Method (CRM) for Phase I Clinical Trials
CCMN and other noRMalizatioN methods for metabolomics data
Downloads and Builds datasets for Climate Reference Network
Construction of Crossover Designs
The Cross-match Test
Generic Functions for Cross Validation
CreditRisk+ portfolio model
Cross-Recurrence Quantification Analysis for Categorical and Continuous Time-Series
Competing risks regression for Stratified and Clustered data
Stepwise covariate selection for the Fine & Gray competing risks regression model
Categorical Regression Splines
Sample Size Estimation Functions for Cluster Randomized Trials
Identifying cryptic relatedness in genetic association studies
Functions for Conditional Simulation in Regression-Scale Models
Covariate-adjusted Skewed Functional Model (cSFM)
CShapes Dataset and Utilities
Conditionally Specified Logistic Regression
Closed-skew normal distribution
Accessing Csound functionality through R
Extract information from an html document with CSS selectors
csSAM - cell-specific Significance Analysis of Microarrays
Substantive significance testing for regression estimates and marginal effects
Fast Specialized CSV File Loader
Continuous Time Autoregressive Models
Classical Test Theory Functions
CRAN Task Views
Adaptive multivariate integration over hypercubes
Codon Usage Bias Fits
Rule- and Instance-Based Regression Modeling
CUDA Parallel Implementation of a Bayesian Multilevel Model for fMRI Data Analysis
Data sets for the examples used in the package "cudaBayesreg"
CUDIA Cross-level Imputation
Analyze Multivariate Phenotypes by Combining Univariate results
Extends ddply to allow calculation of cumulative quantities
Change point detection in genomic sequences
Estimation of CCI and CLFS Functions
The package will formally test two curves represented by discrete data sets to be statistically equal or
not when the errors of the two curves were assumed either equal or not using the tube formula to
calculate the tail probabilities
curvHDR filtering of flow cytometry samples
Cusp Catastrophe Model Fitting Using Maximum Likelihood
CUTOFF: A Spatio-temporal Imputation Method

cuttlefish.model
cvAUC
CVcalibration
CVD
cvplogistic
cvq2
CVST
CVThresh
cvTools
cvxclustr
cwhmisc
cwm
cxxfunplus
cycloids
cyphid
cytoDiv
d3Network
DAAG
DAAGbio
DAAGxtras
dae
daewr
dafs
dagbag
DAGGER
dagR
Daim
DAKS
DALY
DAMisc
dams
DandEFA
darch
darts
data.table
DatABEL
datacheck
DataCombine
dataframes2xls
datalist
datamap
datamart
datamerge
dataone
dataonelibs
dataQualityR

An R package to perform LPUE standardization and stock assessment of the English Channel cuttlefish
stock using a two-stage biomass model
Cross-Validated Area Under the ROC Curve Confidence Intervals
Estimation of the Calibration Equation with Error-in Observations
Color Vision Deficiencies
Penalized Logistic Regression Model using Majorization Minimization by Coordinate Descent (MMCD)
Algorithm
Calculate the predictive squared correlation coefficient
Fast Cross-Validation via Sequential Testing
Level-Dependent Cross-Validation Thresholding
Cross-validation tools for regression models
Splitting methods for convex clustering
Miscellaneous Functions for math, plotting, printing, statistics, strings, and tools
Cluster Weighted Models by EM algorithm
extend cxxfunction by saving the dynamic shared objects
cycloids
Cycle and Phase Identification for mastication data
Cytometric diversity indices
Tools for creating D3 JavaScript network and tree graphs from R
Data Analysis And Graphics data and functions
Data Sets and Functions, for demonstrations with expression arrays and gene sequences
Data Sets and Functions, supplementary to DAAG
Functions useful in the design and ANOVA of experiments
Design and Analysis of Experiments with R
Data analysis for forensic scientists
Learning directed acyclic graphs (DAGs) through bootstrap aggregating
Consensus genetic maps
R functions for directed acyclic graphs
Diagnostic accuracy of classification models
Data Analysis and Knowledge Spaces
DALY Calculator - A GUI for stochastic DALY calculation in R
Dave Armstrong's Miscellaneous Functions
Dams in the United States from the National Inventory of Dams (NID)
Dandelion Plot for R-mode Exploratory Factor Analysis
Package for deep architectures and Restricted-Bolzmann-Machines
Statistical Tools to Analyze Your Darts Game
Extension of data.frame
file-based access to large matrices stored on HDD in binary format
Tools for checking data consistency
R tools for making it easier to combine and clean data sets
dataframes2xls writes data frames to xls files
An R package to convert data sets for import into JAGS, WinBUGS and OpenBUGS and to generate
data.frames for predicting the effects of particular variables
A system for mapping foreign objects to R variables and environments
Unified access to your data sources
Merging of overlapping and inconsistent data
DataONE R Client
DataONE R Client Libraries
Performs variable level data quality checks and generates summary statistics

datautils
dataview
date
DATforDCEMRI
dave
Davies
dawai
dbConnect
dbEmpLikeGOF
dbEmpLikeNorm
DBFTest
DBGSA
DBI
DBKGrad
dblcens
dbmss
dbstats
dcemriS4
DCGL
dcGOR
DCL
dclone
DCluster
dcmle
dcv
ddalpha
DDD
ddepn
DDHFm
ddst
deal
deamer
debug
decctools
DECIDE
decon
Deducer
DeducerExtras
DeducerPlugInExample
DeducerPlugInScaling
DeducerSpatial
DeducerSurvival
DeducerText
deducorrect
deepnet
Defaults
degenes

Support functions for packages VBmix, semisupKernelPCA, and patchPlot

Human readable data presentation
Functions for handling dates
Deconvolution Analysis Tool for Dynamic Contrast Enhanced MRI
Functions for "Data Analysis in Vegetation Ecology"
The Davies quantile function
Discriminant analysis with additional information
Provides a graphical user interface to connect with databases that use MySQL
Goodness-of-fit and two sample comparison tests using sample entropy
Test for joint assessment of normality
DBF test of no difference between groups
methods of distance-based gene set functional enrichment analysis
R Database Interface
Discrete Beta Kernel Graduation of Mortality Data
Compute the NPMLE of distribution from doubly censored data
Distance-based measures of spatial structures
Distance-based statistics (dbstats)
A Package for Medical Image Analysis (S4 implementation)
Differential Co-expression Analysis and Differential Regulation Analysis of Gene Expression Microarray
Data
an open-source R package for analysing domain-centric ontologies and annotations
Claims Reserving under the Double Chain Ladder Model
Data Cloning and MCMC Tools for Maximum Likelihood Methods
Functions for the detection of spatial clusters of diseases
Hierarchical Models Made Easy with Data Cloning
Conventional Cross-validation statistics for climate-growth model
DDalpha-classifier, depth-calculating methods and associated functions
Diversity-dependent diversification
Dynamic Deterministic Effects Propagation Networks: Infer signalling networks for timecourse RPPA
data
Variance Stabilization by Data-Driven Haar-Fisz (for Microarrays)
Data driven smooth test
Learning Bayesian Networks with Mixed Variables
Deconvolution density estimation with adaptive methods for a variable prone to measurement error
MVB's debugger for R
Get energy data from the UK Dept of Energy and Climate Change
DEComposition of Indirect and Direct Effects
Deconvolution Estimation in Measurement Error Models
Deducer: A data analysis GUI for R
Additional dialogs and functions for Deducer
Deducer Plug-in Example
Reliability and factor analysis plugin
Deducer for spatial data analysis
Add Survival Dialogue to Deducer
Deducer GUI for Text Data
deducorrect: Deductive correction, deductive imputation, and deterministic correction
deep learning toolkit in R
Create Global Function Defaults
Detection of differentially expressed genes

degreenet
Delaporte
deldir
deltaPlotR
Demerelate
DEMEtics
demi
demography
demoKde
dendextend
dendextendRcpp
dendroextras
DendSer
dendsort
denpro
Density.T.HoldOut
denstrip
DEoptim
DEoptimR
depend.truncation
depmix
depmixS4
depth
depthTools
descr
DescribeDisplay
DescTools
deseasonalize
designGG
desirability
desire
DESnowball
deSolve
detect
deTestSet
detrendeR
DetSel
devEMF
Devore6
Devore7
devtools
df2json
dfcrm
dfexplore
DFIT
dfoptim
dglars

Models for Skewed Count Distributions Relevant to Networks

Statistical functions for the Delaporte distribution
Delaunay Triangulation and Dirichlet (Voronoi) Tessellation
Identification of dichotomous differential item functioning (DIF) using Angoff's Delta Plot method
Functions to calculate relatedness on diploid genetic data
Evaluating the genetic differentiation between populations based on Gst and D values
Differential Expression from Multiple Indicators
Forecasting mortality, fertility, migration and population data
Kernel Density Estimation for Demonstration Purposes
Extending R's dendrogram functionality
Faster dendrogram manipulation using Rcpp
Extra functions to cut, label and colour dendrogram clusters
Dendrogram seriation: ordering for visualisation
Sorting and reordering dendrogram nodes
Visualization of multivariate, functions, sets, and data
Density.T.HoldOut: Non-combinatorial T-estimation Hold-Out for density estimation
Density strips and other methods for compactly illustrating distributions
Global optimization by Differential Evolution
Differential Evolution Optimization in pure R
Statistical inference for parametric and semiparametric models based on dependently truncated data
Dependent Mixture Models
Dependent Mixture Models - Hidden Markov Models of GLMs and Other Distributions in S4
Depth functions tools for multivariate analysis
Depth Tools Package
Descriptive statistics
R interface to DescribeDisplay (GGobi plugin)
Tools for descriptive statistics
Optimal deseasonalization for geophysical time series using AR fitting
Computational tool for designing genetical genomics experiments
Desirabiliy Function Optimization and Ranking
Desirability functions in R
Bagging with Distance-based Regression for Differential Gene Expression Analyses
General Solvers for Initial Value Problems of Ordinary Differential Equations (ODE), Partial Differential
Equations (PDE), Differential Algebraic Equations (DAE), and Delay Differential Equations (DDE)
Analyzing Wildlife Data with Detection Error
Testset for differential equations
Start the detrendeR Graphical User Interface (GUI)
A computer program to detect markers responding to selection
EMF graphics output device
Data sets from Devore's "Prob and Stat for Eng (6th ed)"
Data sets from Devore's "Prob and Stat for Eng (7th ed)"
Tools to make developing R code easier
Convert a dataframe to JSON
Dose-finding by the continual reassessment method
Explore data.frames by plotting NA and classes of each variable
Differential Functioning of Items and Tests (DFIT) framework analyses
Derivative-free Optimization
Differential Geometric LARS (dgLARS) method

dglm
dgmb
dgof
dhglm
diagram
DiagTest3Grp
diaplt
dice
DiceDesign
DiceEval
DiceKriging
DiceOptim
DiceView
dichromat
dicionariosIBGE
dielectric
DierckxSpline
diffdepprop
diffEq
diffIRT
diffractometry
diffusionMap
DIFlasso
difR
digest
Digiroo2
dils
DIME
dinamic
diptest
DIRECT
directlabels
directPA
DirichletReg
dirmult
Disake
disclap
disclapmix
DiscML
DiscreteInverseWeibull
DiscreteLaplace
discreteMTP
discreteRV
DiscreteWeibull
discretization
discrimARTs

Double generalized linear models

dgmb Simulating data for PLS structural models
Discrete Goodness-of-Fit Tests
Double Hierarchical Generalized Linear Models
Functions for visualising simple graphs (networks), plotting flow diagrams
Diagnostic test summary measures for three ordinal groups
Beads Summary Plot of Ranges
Calculate probabilities of various dice-rolling events
Designs of Computer Experiments
Construction and evaluation of metamodels
Kriging methods for computer experiments
Kriging-based optimization for computer experiments
Plot methods for computer experiments design and surrogate
Color Schemes for Dichromats
Dictionaries for reading microdata surveys from IBGE
Defines some physical constants and dielectric functions commonly used in optics, plasmonics
R companion to "Curve and Surface Fitting with Splines"
Calculates Confidence Intervals for two Dependent Proportions
Functions from the book Solving Differential Equations in R
Diffusion IRT models for Response and Response Time Data
Baseline identification and peak decomposition for x-ray diffractograms
Diffusion map
A penalty approach to Differential Item Functioning in Rasch Models
Collection of methods to detect dichotomous differential item functioning (DIF) in psychometrics
Create cryptographic hash digests of R objects
An application programming interface for generating null models of social contacts based on individuals'
space use
Data-Informed Link Strength. Combine multiple-relationship networks into a single weighted network.
Impute (fill-in) missing network links
DIME (Differential Identification using Mixture Ensemble)
DiNAMIC A Method To Analyze Recurrent DNA Copy Number Aberrations in Tumors
Hartigan's dip test statistic for unimodality - corrected code
Bayesian Clustering of Multivariate Data Under the Dirichlet-Process Prior
Direct labels for multicolor plots in lattice or ggplot2
Direction Pathway Analysis
Dirichlet Regression in R
Estimation in Dirichlet-Multinomial distribution
Discrete associated kernel estimators
Discrete Laplace Exponential Family
Discrete Laplace mixture inference using the EM algorithm
DiscML: An R package for estimating evolutionary rates of discrete characters using maximum
likelihood
Discrete inverse Weibull distribution
Discrete Laplace distribution
Multiple testing procedures for discrete test statistics
Functions to create and manipulate discrete random variables
Discrete Weibull distribution
Data preprocessing, discretization for classification
Discrimination of Alternative Reproductive Tactics (ARTs)

DiscriMiner
diseasemapping
diskmemoiser
dismo
disp2D
displayHTS
dispmod
dissUtils
Distance
DistatisR
distfree.cr
distillery
distory
distr
distrDoc
distrEllipse
distrEx
DistributionUtils
distrMod
distrom
distrRmetrics
distrSim
distrTeach
distrTEst
divagis
DivE
diveMove
diversitree
diveRsity
DiversitySampler
DivMelt
dixon
dkDNA
dlm
dlmap
dlmodeler
dlnm
dma
DMR
dmt
DMwR
dna
DNAprofiles
DNAtools
DnE
dnet

Tools of the Trade for Discriminant Analysis

Calculate observed and expected disease incidence counts from a case file and population data
Disk Memoisation For R
Species distribution modeling
2D Hausdorff and Simplex Dispersion Orderings
displayHTS
Dispersion models
Utilities for making pairwise comparisons of multivariate data
A simple way to fit detection functions to distance sampling data and calculate abundance/density for
biological populations
DiSTATIS Three Way Metric Multidimensional Scaling
Distribution-free confidence region (distfree.cr)
Method Functions for Confidence Intervals and to Distill Information from an Object
Distance Between Phylogenetic Histories
Object oriented implementation of distributions
Documentation for packages distr, distrEx, distrSim, distrTEst, distrTeach, distrMod, and distrEllipse
S4 classes for elliptically contoured distributions
Extensions of package distr
Distribution Utilities
Object oriented implementation of probability models
Distributed Multinomial Regression
Package distr classes for distributions from Rmetrics
Simulation classes based on package distr
Extensions of package distr for teaching Stochastics/Statistics in secondary school
Estimation and Testing classes based on package distr
Provides tools for quality checks of georeferenced plant species accessions
Diversity Estimator
Dive analysis and calibration
diversitree: comparative phylogenetic analyses of diversification
diveRsity: Genetic diversity partition statistics and Informative locus selection using Fst, Gst, Dest(Jost
Chao) G'st and In
Functions for re-sampling a community matrix to compute diversity indices at different sampling levels
HRM Diversity Assay Analysis Tool
Nearest Neighbour Contingency Table Analysis
Diffusion kernels on a set of genotypes
Bayesian and Likelihood Analysis of Dynamic Linear Models
Detection Localization Mapping for QTL
Generalized Dynamic Linear Modeler
Distributed Lag Non-linear Models
Dynamic model averaging
Delete or Merge Regressors for linear model selection
Dependency Modeling Toolkit
Functions and data for "Data Mining with R"
Differential Network Analysis
DNA profiling evidence analysis
Tools for analysing forensic genetic DNA data
DnE(Distribution and Equation)
an open-source R package for omics data integrative analysis in terms of network, evolution and
ontology

DOBAD
doBy
docopt
Dodge
DoE.base
DoE.wrapper
doMC
Dominance
domino
doMPI
doParallel
doRedis
doRNG
DoseFinding
doSNOW
dosresmeta
dostats
DoubleCone
DoubleExpSeq
downloader
dpa
dpcR
dpglasso
dplR
dplyr
dpmixsim
DPpackage
DPw
dr
drawExpression
drc
drfit
drgee
DRI
drm
drmdel
drsmooth
ds
dsample
DSBayes
dse
dse1
dse2
DSL
dslice
dsm
DSpat

Analysis of Discretely Observed linear Birth-And-Death(-and-immigration) Markov Chains

doBy - Groupwise summary statistics, LSmeans, general linear contrasts, various utilities
docopt, commandline interface specification language
Functions for Acceptance Sampling Ideas originated by H.F. Dodge
Full factorials, orthogonal arrays and base utilities for DoE packages
Wrapper package for design of experiments functionality
Foreach parallel adaptor for the multicore package
ADI (average dominance index), social network graphs with dual directions, and music notation graph
Domino Data Lab R console bindings
Foreach parallel adaptor for the Rmpi package
Foreach parallel adaptor for the parallel package
Foreach parallel adapter for the rredis package
Generic Reproducible Parallel Backend for foreach Loops
Planning and Analyzing Dose Finding experiments
Foreach parallel adaptor for the snow package
Performing multivariate dose-response meta-analysis
Compute statistics helper functions
Test against parametric regression function
Differential Exon Usage Test for RNA-Seq data via Empirical Bayes Shrinkage of the Dispersion
Parameter
A package for downloading files over http and https
Dynamic Path Approach
Digital PCR Analysis
Primal Graphical Lasso
Dendrochronology Program Library in R
dplyr: a grammar of data manipulation
Dirichlet Process Mixture model simulation for clustering and image segmentation
Bayesian nonparametric modeling in R
Semiparametric Bayesian procedure for selecting a subset containing the weakest species with an
acceptably high probability
Methods for dimension reduction for regression
Visualising R syntax through graphics
Analysis of dose-response curve data
Dose-response data evaluation
Doubly Robust Generalized Estimating Equations
DR-Integrator
Regression and association models for repeated categorical data
Dual empirical likelihood inference under density ratio models in the presence of multiple samples
Dose-Response Modeling with Smoothing Splines
Descriptive Statistics
Discretization-based Direct Random Sample Generation
Bayesian subgroup analysis in clinical trials
Dynamic Systems Estimation (time series package)
DSE (unbundled transition package)
DSE (unbundled transition package)
Distributed Storage and List
Dynamic slicing
Density surface modelling of distance sampling data
Spatial modelling for distance sampling data

DSsim
DTComPair
DTDA
dti
DTK
DTMCPack
DTR
dtt
dtw
dualScale
dummies
DunnettTests
dupiR
dvfBm
dvn
DWD
dyn
DynamicDistribution
dynamicGraph
dynamicTreeCut
dynatopmodel
dynaTree
dynBiplotGUI
DynClust
dynCorr
dynia
dynlm
dynsim
dynsurv
e1071
eaf
earlywarnings
earth
easi
easingr
EasyABC
easyanova
EasyHTMLReport
EasyMARK
easynls
EasyStrata
eba
ebal
EbayesThresh
ebdbNet
EBEN
EBMAforecast

Distance Sampling Simulations

Comparison of Binary Diagnostic Tests in a Paired Study Design
Doubly truncated data analysis
Analysis of diffusion weighted imaging (DWI) data
Dunnett-Tukey-Kramer Pairwise Multiple Comparison Test Adjusted for Unequal Variances and Unequal
Sample Sizes
Suite of functions related to discrete-time discrete-state Markov Chains
Estimation and comparison of dynamic treatment regimes
Discrete Trigonometric Transforms
Dynamic time warping algorithms
Dual Scaling Analysis of Multiple Choice Data
Create dummy/indicator variables flexibly and efficiently
Software implementation of step-down and step-up Dunnett test procedures
Bayesian inference from count data using discrete uniform priors
Discrete variations of a fractional Brownian motion
Access to The Dataverse Network APIs
DWD implementation based on A IPM SOCP solver
Time Series Regression
Dynamically visualized probability distributions and their moments
dynamicGraph
Methods for detection of clusters in hierarchical clustering dendrograms
Implementation of the Dynamic TOPMODEL hydrological model
Dynamic trees for learning and design
dynBiplotGUI: Full Interactive GUI for Dynamic Biplot in R
Denoising and clustering for dynamical image sequence (2D or 3D)+T
Dynamic Correlation Package
Fit Dynamic Intervention Model
Dynamic Linear Regression
An R implementation of dynamic simulations of autoregressive relationships
Dynamic models for survival data
Misc Functions of the Department of Statistics (e1071), TU Wien
Plots of the Empirical Attainment Function
Early Warning Signals Toolbox for Detecting Critical Transitions in Timeseries
Multivariate Adaptive Regression Spline Models
EASI Demand System Estimation
Fetch the Cleveland Federal Reserve Bank easing policy tool data
EasyABC: performing efficient approximate Bayesian computation sampling schemes
Analysis of variance and other important complementary analyzes
EasyHTMLReport
Utility functions for working with mark-recapture data
Easy nonlinear model
Evaluation of stratified genome-wide association meta-analysis results
Elimination-by-Aspects (EBA) Models
Entropy reweighting to create balanced samples
Empirical Bayes Thresholding and Related Methods
Empirical Bayes Estimation of Dynamic Bayesian Networks
Empirical Bayesian Elastic Net
Ensemble BMA Forecasting

EBS
ebSNP
Ecdat
ecespa
Ecfun
ecodist
ecoengine
EcoHydRology
ecolMod
ecoreg
ecosim
EcoTroph
edcc
edeR
EDISON
editrules
edmr
EDR
edrGraphicalTools
eegAnalysis
eeptools
effects
EffectsRelBaseline
EffectStars
effsize
egcm
eggCounts
egonet
eha
eHOF
eigeninv
eigenmodel
eigenprcomp
EILA
eiPack
eive
eiwild
EL
elasticnet
elec
elec.strat
ElemStatLearn
elliplot
ellipse
elliptic
elmNN

Exact Bayesian Segmentation

Genotyping and SNP calling using single-sample next generation sequencing data
Data sets for econometrics
Functions for spatial point pattern analysis
Functions for Ecdat
Dissimilarity-based functions for ecological analysis
Programmatic interface to the API serving UC Berkeley's Natural History Data
A community modeling foundation for Eco-Hydrology
"A practical guide to ecological modelling - using R as a simulation platform"
Ecological regression using aggregate and individual data
Toolbox for Aquatic Ecosystem Modeling
EcoTroph R package
Economic Design of Control Charts
Email Data Extraction Using R
Software for network reconstruction and changepoint detection
R package for parsing, applying, and manipulating data cleaning rules
Empirical differentially methylated regions calculation
Estimation of the effective dimension reduction (EDR) space
Provides tools for dimension reduction methods
Tools for analysis and classification of electroencephalography (EEG) data
Convenience functions for education data
Effect Displays for Linear, Generalized Linear, Multinomial-Logit, Proportional-Odds Logit Models and
Mixed-Effects Models
Test changes of a grouped response relative to baseline
Visualization of Categorical Response Models
Efficient effect size computation
Engle-Granger cointegration models
Hierarchical modelling of faecal egg counts
Tool for ego-centric measures in Social Network Analysis
Event History Analysis
Extended and enhanced Hierarchical Logistic Regression models (so called Huisman-Olff-Fresco
models)
Generates (dense) matrices that have a given set of eigenvalues
Semiparametric factor and regression models for symmetric relational data
Computes confidence intervals for principal components
Efficient Inference of Local Ancestry
eiPack: Ecological Inference and Higher-Dimension Data Management
An algorithm for reducing errors-in-variable bias in simple linear regression
Ecological Inference with individual and aggregate data
Two-sample Empirical Likelihood
Elastic-Net for Sparse Estimation and Sparse PCA
Collection of functions for statistical election audits
Functions for election audits using stratified random samples
Data sets, functions and examples from the book: "The Elements of Statistical Learning, Data Mining,
Inference, and Prediction" by Trevor Hastie, Robert Tibshirani and Jerome Friedman
Ellipse Summary Plot of Quantiles
Functions for drawing ellipses and ellipse-like confidence regions
elliptic functions
Implementation of ELM (Extreme Learning Machine ) algorithm for SLFN ( Single Hidden Layer
Feedforward Neural Networks )

EloRating
elrm
ElstonStewart
ELT
em2
EMA
EMC
EMCC
EMCluster
EMD
emdatr
emdbook
emdist
emg
EMJumpDiffusion
emma
EMMAgeo
emme2
EMMIXcontrasts
EMMIXskew
EMMIXuskew
EMMREML
emoa
EMP
emplik
emplik2
EMT
emulator
EMVC
ENA
enaR
endogMNP
endorse
energy
english
EngrExpt
ENmisc
EnQuireR
enRich
enrichvs
ensembleBMA
ensembleMOS
entropart
entropy
EntropyEstimation
enviPat
EnviroStat

Animal Dominance Hierarchies by Elo Rating

Exact Logistic Regression via MCMC
Elston-Stewart Algorithm
ELT - A package to build Experience Life Tables
A package for computing reading time measures for psycholinguistics
Easy Microarray data Analysis
Evolutionary Monte Carlo (EMC) algorithm
Evolutionary Monte Carlo (EMC) methods for clustering
EM Algorithm for Model-Based Clustering of Finite Mixture Gaussian Distribution
Empirical Mode Decomposition and Hilbert Spectral Analysis
Global Disaster Losses from the EMDAT database Using R
Ecological models and data (book support)
Earth Mover's Distance
Exponentially Modified Gaussian (EMG) Distribution
EM-Algorithm for Jump Diffusion processes
Evolutionary model-based multiresponse approach
End-member modelling algorithm and supporting functions for grain-size analysis
Read and Write to an EMME/2 databank
Contrasts in mixed effects for EMMIX model with random effects
The EM Algorithm and Skew Mixture Distribution
Fitting Unrestricted Multivariate Skew t Mixture Models
Fitting mixed models with known covariance structures
Evolutionary Multiobjective Optimization Algorithms
EMP: Expected Maximum Profit for Credit Scoring
Empirical likelihood ratio for censored/truncated data
Empirical-likelihood test (two-sample, censored data)
Exact Multinomial Test: Goodness-of-Fit Test for Discrete Multivariate data
Bayesian emulation of computer programs
Entropy Minimization over Variable Clusters (EMVC)
Ensemble Network Aggregation
Tools for ecological network analysis (ena) in R
R Package for Fitting Multinomial Probit Models with Endogenous Selection
R Package for Analyzing Endorsement Experiments
E-statistics (energy statistics)
Translate integers into English
Data sets from "Introductory Statistics for Engineering Experimentation"
Neuwirth miscellaneous
A package dedicated to questionnaires
An R package for the analysis of multiple ChIP-seq data
Enrichment assessment of virtual screening approaches
Probabilistic Forecasting using Ensembles and Bayesian Model Averaging
Ensemble Model Output Statistics
Entropy partitioning to measure diversity
Estimation of Entropy, Mutual Information and Related Quantities
Tools for the estimation of entropy and related quantities
Isotope pattern, profile and centroid calculation for mass spectrometry
Statistical analysis of environmental space-time processes

EnvNicheR
EnvStats
epade
Epi
epi2loc
epibasix
epicalc
EpiContactTrace
EpiDynamics
EpiEstim
EpiModel
epinet
epiR
epitools
epoc
epr
EQL
eqs2lavaan
eqtl
equate
equateIRT
equivalence
erboost
erer
ergm
ergm.count
ergm.graphlets
ergm.userterms
ergmharris
eRm
ERP
erpR
ES
ESG
ESGtoolkit
esotericR
ESPRESSO
EstCRM
estout
etable
ETAS
etasFLP
ETC
ETLUtils
etm
eulerian

Environmental niche
Package for Environmental Statistics, including US EPA Guidance
Easy Plots
A package for statistical analysis in epidemiology
Epistatic and penetrance models for two-locus genetic interactions
Elementary Epidemiological Functions for Epidemiology and Biostatistics
Epidemiological calculator
Epidemiological tool for contact tracing
Dynamic Models in Epidemiology
EpiEstim: a package to estimate time varying reproduction numbers from epidemic curves
Mathematical Modeling of Infectious Disease
A collection of epidemic/network-related tools
An R package for the analysis of epidemiological data
Epidemiology Tools
EPoC (Endogenous Perturbation analysis of Cancer)
Easy polynomial regression
Extended-Quasi-Likelihood-Function (EQL)
EQS Output Conversion to lavaan Functions
Tools for analyzing eQTL experiments: A complementary to Karl Broman's 'qtl' package for genomewide analysis
Observed-Score Linking and Equating
Direct, chain and average equating coefficients with standard errors using IRT methods
Provides tests and graphics for assessing tests of equivalence
Nonparametric Multiple Expectile Regression via ER-Boost
Empirical Research in Economics with R
Fit, Simulate and Diagnose Exponential-Family Models for Networks
Fit, Simulate and Diagnose Exponential-Family Models for Networks with Count Edges
ergm.graphlets: A Package for ERG Modeling Based on Graphlet Properties
User-specified terms for the statnet suite of packages
Local Health Department network data set
Extended Rasch Modeling
Significance analysis of Event-Related Potentials data
Event-related potentials (ERP) analysis, graphics and utility functions
Edge Selection
ESG - A package for asset projection
Toolkit for the simulation of financial assets and interest rates models
esotericR articles from lemnica.com
Power Analysis and Sample Size Calculation
Calibrating Parameters for the Samejima's Continuous IRT Model
Estimates Output
Easy Table
Modeling earthquake data using Epidemic Type Aftershock Sequence model
Estimation of an ETAS model. Mixed FLP (Forward Likelihood Predictive) and ML estimation of nonparametric and parametric components of the ETAS model for earthquake description
Equivalence to control
Utility functions to execute standard ETL operations (using package ff) on large data
Empirical Transition Matrix
eulerian: A package to find eulerian paths from graphs

EvalEst
evaluate
Evapotranspiration
EvCombR
evd
evdbayes
eVenn
eventInterval
events
eventstudies
EVER
evir
evmix
evobiR
evolvability
evora
EvoRAG
evt0
evtree
EWGoF
Exact
exact2x2
exactci
ExactCIdiff
exactLoglinTest
exactmeta
ExactPath
exactRankTests
exams
ExceedanceTools
excel.link
excursions
ExomeDepth
expands
ExpDes
ExpDes.pt
expectreg
experiment
expert
expm
expoRkit
ExPosition
expoTree
expp
expsmooth
exptest

Dynamic Systems Estimation - extensions

Parsing and evaluation tools that provide more details than the default
Evapotranspiration
Evidence Combination in R
Functions for extreme value distributions
Bayesian Analysis in Extreme Value Theory
eVenn: A powerful tool to compare lists and draw Venn diagrams
Sequential event interval analysis
Store and manipulate event data
Event study and extreme event analysis
Estimation of Variance by Efficient Replication
Extreme Values in R
Extreme Value Mixture Modelling, Threshold Estimation and Boundary Corrected Kernel Density
Estimation
evobiR: evolutionary biology in R
Calculation of evolvability parameters
Epigenetic Variable Outliers for Risk prediction Analysis
Evolutionary Rates Across Gradients
Mean of order p, peaks over random threshold Hill and high quantile estimates
Evolutionary Learning of Globally Optimal Trees
Goodness-of-fit tests for the Exponential and two-parameter Weibull distributions
Unconditional Exact Test
Exact Conditional Tests and Confidence Intervals for 2x2 tables
Exact P-values and Matching Confidence Intervals for simple Discrete Parametric Cases
Inductive Confidence Intervals for the difference between two proportions
Monte Carlo Exact Tests for Log-linear models
Exact fixed effect meta analysis
Exact solution paths for regularized LASSO regressions with L_1 penalty
Exact Distributions for Rank and Permutation Tests
Automatic Generation of Exams in R
Confidence Regions for Exceedance Regions and Contour Lines
Convenient way to work with data in Microsoft Excel
Functions that compute probabilistic excursion sets and contour credibility regions for latent Gaussian
random processes and fields
Calls CNV from exome sequence data
ExPANdS
Experimental Designs package
Pacote Experimental Designs (Portuguese)
Expectile and Quantile Regression
experiment: R package for designing and analyzing randomized experiments
Modeling without data using expert opinion
Matrix exponential
Expokit in R
Exploratory analysis with the singular value decomposition
Calculate density dependent likelihood of a phylogenetic tree
Spatial analysis of extra-pair paternity
Data sets from "Forecasting with exponential smoothing"
Tests for Exponentiality

exsic
ExtDist
extfunnel
extraBinomial
extracat
extrafont
extrafontdb
extraTrees
ExtremeBounds
extRemes
extremevalues
extWeibQuant
eyetracking
ez
ezglm
ezsim
FacPad
factas
FactMixtAnalysis
FactoClass
FactoMineR
factorplot
factorQR
factualR
FAdist
Fahrmeir
fail
FAiR
faisalconjoint
falcon
fame
Familias
FAMT
fanc
fANCOVA
fanovaGraph
fanplot
FAOSTAT
faoutlier
far
faraway
fArma
farsi
fAsianOptions
fAssets
fast

Convenience functions for botanist to create exsiccatae indices

Extended Probability Distribution Functions
Additional Funnel Plot Augmentations
Extra-binomial approach for pooled sequencing data
Categorical Data Analysis and Visualization
Tools for using fonts
Package for holding the database for the extrafont package
ExtraTrees method
Extreme Bounds Analysis (EBA)
Extreme Value Analysis
Univariate outlier detection
Estimate the lower extreme quantile with the censored Weibull MLE and censored Weibull Mixture
Eyetracking Helper Functions
Easy analysis and visualization of factorial experiments
selects significant non-additive interaction between two variables using fast GLM implementation
provide an easy to use framework to conduct simulation
Bayesian Sparse Factor Analysis model for the inference of pathways responsive to drug treatment
Data Mining Methods for Data Streams
Factor Mixture Analysis with covariates
Combination of Factorial Methods and Cluster Analysis
Multivariate Exploratory Data Analysis and Data Mining with R
factorplot
Bayesian quantile regression factor models
thin wrapper for the Factual.com server API
Distributions that are sometimes used in hydrology
Data from the book "Multivariate Statistical Modelling Based on Generalized Linear Models", first
edition, by Ludwig Fahrmeir and Gerhard Tutz
File Abstraction Interface Layer (FAIL) mimicking a key-value store
Factor Analysis in R
Faisal Conjoint Model: A New Approach to Conjoint Analysis
Finding Allele-specific Copy Number in Next-Generation Sequencing Data
Interface for FAME time series database
Probabilities for Pedigrees given DNA data
Factor Analysis for Multiple Testing (FAMT) : simultaneous tests under dependence in high-dimensional
data
Penalized likelihood factor analysis via nonconvex penalty
Nonparametric Analysis of Covariance
Building Kriging models from FANOVA graphs
Visualisation of sequential probability distributions using fan charts
A complementary package to the FAOSTAT database and the Statistical Yearbook of the Food and
Agricultural Organization of the United Nations
Influential case detection methods for factor analysis and SEM
Modelization for Functional AutoRegressive processes
Functions and datasets for books by Julian Faraway
ARMA Time Series Modelling
Translate integers into persian
EBM and Asian Option Valuation
Rmetrics - Analysing and Modelling Financial Assets
Implementation of the Fourier Amplitude Sensitivity Test (FAST)

fastclime
fastcluster
fastcox
fastGHQuad
FastHCS
fastHICA
fastICA
FastImputation
fastM
fastmatch
FastPCS
fastR
FastRCS
FastRWeb
fastSOM
fat2Lpoly
FAwR
fBasics
fbati
FBFsearch
FBN
fBonds
fbRanks
fcd
fCertificates
fclust
fCopulae
fcros
FD
fda
fda.usc
fdakma
fdaMixed
fdasrvf
fdatest
FDboost
fdrci
FDRreg
fdrtool
fds
fdth
FeaLect
feature
features
fechner
federalregister

A fast solver for parameterized lp problems and constrained l1 minimization approach to sparse
precision matrix estimation
Fast hierarchical clustering routines for R and Python
Lasso and elastic-net penalized Cox's regression in high dimensions models using the cocktail
algorithm
Fast Rcpp implementation of Gauss-Hermite quadrature
R package to compute the FastHCS outlyingness index
Hierarchical Independent Component Analysis: a multi-scale sparse non-orthogonal data-driven basis
FastICA Algorithms to perform ICA and Projection Pursuit
Learn from training data then quickly fill in missing data
Fast Computation of Multivariate M-estimators
Fast match() function
R package to compute the FastPCS outlyingness index
Data sets and utilities for Foundations and Applications of Statistics by R Pruim
R package to compute the FastRCS outlyingness index
Fast Interactive Framework for Web Scripting Using R
Fast Calculation of Spillover Measures
Two-locus Family-based Association Test with Polytomic Outcome
Functions and Datasets for "Forest Analytics with R"
Rmetrics - Markets and Basic Statistics
Gene by Environment Interaction and Conditional Gene Tests for Nuclear Families
Algorithm for searching the space of Gaussian directed acyclic graphical models through moment
fractional Bayes factors
FISH Based Normalization and Copy Number inference of SNP microarray data
Bonds and Interest Rate Models
Association Football (Soccer) Ranking via Poisson Regression
Fused Community Detection
fCertificates - Basics of Certificates and Structured Products Valuation
Fuzzy clustering
Rmetrics - Dependence Structures with Copulas
FCROS for detecting differentially expressed genes
Measuring functional diversity (FD) from multiple traits, and other tools for functional ecology
Functional Data Analysis
Functional Data Analysis and Utilities for Statistical Computing (fda.usc)
Functional Data Analysis: K-Mean Alignment
Functional data analysis in a mixed model framework
Elastic Functional Data Analysis
Interval Testing Procedure for functional data
Boosting functional regression models
Permutation-based FDR Point and Confidence Interval Estimation
False discovery rate regression
Estimation of (Local) False Discovery Rates and Higher Criticism
Functional data sets
Frequency Distribution Tables, Histograms and Poligons
Scores features for Feature seLection
Feature significance for multivariate kernel density estimation
Feature Extraction for Discretely-Sampled Functional Data
Fechnerian Scaling of Discrete Object Sets
Client package for the U.S. Federal Register API

FeedbackTS
fExoticOptions
fExpressCertificates
fExtremes
ff
ffbase
FFD
FField
ffmanova
fftw
fftwtools
fgac
FGalgorithm
fGarch
FGN
fgof
FGSG
fgui
FHtest
FI
fICA
fields
FieldSim
fifer
filehash
filehashSQLite
fImport
financial
FinancialInstrument
FinAsym
FinCal
FindAllRoots
FindIt
FindMinIC
findpython
fingerprint
finiteruinprob
FinTS
FisherEM
fisheyeR
FisHiCal
fishmethods
fishMod
fishmove
fit.models
fit4NM
FitAR

Analysis of Feedback in Time Series

Exotic Option Valuation
fExpressCertificates - Structured Products Valuation for ExpressCertificates/Autocallables
Rmetrics - Extreme Financial Market Data
memory-efficient storage of large data on disk and fast access functions
Basic statistical functions for package ff
Freedom From Disease
Force field simulation for a set of points
Fifty-fifty MANOVA
Fast FFT and DCT based on FFTW
Wrapper for fftw3: includes 1-D, univariate and multivariate, and 2-D transform
Generalized Archimedean Copula
Flury and Gautschi algorithms
Rmetrics - Autoregressive Conditional Heteroskedastic Modelling
Fractional Gaussian Noise and power law decay time series model fitting
Fast Goodness-of-fit Test
Feature grouping and selection over an undirected graph
Function GUI
Tests for right and interval-censored survival data based on the Fleming-Harrington class
Provide functions for forest inventory calculations
Classic, reloaded and adaptive FastICA algorithms
Tools for spatial data
Random fields simulations
A collection of miscellaneous functions
Simple key-value database
Simple key-value database using SQLite
Rmetrics - Economic and Financial Data Import
Solving financial problems in R
Financial Instrument Model Infrastructure for R
Classifies implicit trading activity from market quotes and computes the probability of informed trading
Time Value of Money, time series analysis and Computational Finance
Find all root(s) of the equation and Find root(s) of the equation by dichotomy
R Package for Finding Heterogeneous Treatment Effects
Find Models with Minimum IC
Python tools to find an acceptable python binary
Functions to operate on binary fingerprint data
Computation of the probability of ruin within a finite time horizon
Companion to Tsay (2005) Analysis of Financial Time Series
The Fisher-EM algorithm
Fisheye and Hyperbolic-space-alike Interactive Visualization Tools in R
Iterative FISH-based Calibration of Hi-C Data
Fishery Science Methods and Models in R
Fits Poisson-sum-of-Gammas GLMs, Tweedie GLMs, and delta log-normal mdoels
Prediction of Fish Movement Parameters
fit.models
NONMEM platform
Subset AR Model Fitting

FitARMA
fitdistrplus
fitDRC
FITSio
fitTetra
FKF
flare
flashClust
flexclust
flexCWM
flexmix
FlexParamCurve
flexsurv
FLIM
flip
FLLat
flora
flowfield
FLR
flsa
FLSSS
FluOMatic
Flury
flux
fma
FME
fmri
fmsb
FMStable
fmt
fMultivar
FNN
fNonlinear
foba
fontcm
foodweb
fOptions
forams
foreach
ForeCA
forecast
foreign
forensic
forensim
ForImp
ForIT
fork

FitARMA: Fit ARMA or ARIMA using fast MLE algorithm

Help to fit of a parametric distribution to non-censored or censored data
Fitting Density Ratio Classes
FITS (Flexible Image Transport System) utilities
fitTetra is an R package for assigning tetraploid genotype scores
Fast Kalman Filter
Family of Lasso Regression
Implementation of optimal hierarchical clustering
Flexible Cluster Algorithms
Flexible Cluster-Weighted Modeling
Flexible Mixture Modeling
Tools to Fit Flexible Parametric Curves
Flexible parametric survival models
Farewells Linear Increments Model
Multivariate Permutation Tests
Fused Lasso Latent Feature Model
tools for interacting with the Brazilian Flora Checklist
Forecasts future values of a univariate time series
Fuzzy Logic Rule Classifier
Path algorithm for the general Fused Lasso Signal Approximator
Fixed Size Subset Sum Solution
Estimation of background-subtracted fluorescence data
Data Sets from Flury, 1997
Flux rate calculation from dynamic closed chamber measurements
Data sets from "Forecasting: methods and applications" by Makridakis, Wheelwright & Hyndman (1998)
A Flexible Modelling Environment for Inverse Modelling, Sensitivity, Identifiability, Monte Carlo Analysis
Analysis of fMRI experiments
Functions for medical statistics book with some demographic data
Finite Moment Stable Distributions
Variance estimation of FMT method (Fully Moderated t-statistic)
Multivariate Market Analysis
Fast Nearest Neighbor Search Algorithms and Applications
Nonlinear and Chaotic Time Series Modelling
greedy variable selection
Computer Modern font for use with extrafont package
visualisation and analysis of food web networks
Basics of Option Valuation
Foraminifera and Community Ecology Analyses
Foreach looping construct for R
ForeCA - Forecastable Component Analysis
Forecasting functions for time series and linear models
Read Data Stored by Minitab, S, SAS, SPSS, Stata, Systat, Weka, dBase, ..
Statistical Methods in Forensic Genetics
Statistical tools for the interpretation of forensic DNA mixtures
Imputation of missing values through a forward imputation algorithm
Functions from the 2nd Italian Forest Inventory (INFC)
R functions for handling multiple processes

FormalSeries
formatR
Formula
formula.tools
fortunes
forward
fossil
FourScores
fpc
fpca
FPDC
fPortfolio
fpow
fpp
fptdApprox
fracdiff
fracprolif
fractal
fractaldim
fractalrock
FRACTION
frailtyHL
frailtypack
frair
FRAPO
FRB
FRBData
frbs
FRCC
freeknotsplines
freestats
fRegression
FREQ
freqMAP
freqparcoord
freqweights
FrF2
FrF2.catlg128
frm
frmqa
frontier
frontiles
frt
fscaret
FSelector
fslr
fso

Elementary arithemtic in formal series rings

Format R Code Automatically
Extended Model Formulas
Utilities for working with formulas, expressions, calls and other R objects
R Fortunes
Forward search
Palaeoecological and Palaeogeographical Analysis Tools
FourScores - A game for two players
Flexible procedures for clustering
Restricted MLE for Functional Principal Components Analysis
PD-clustering and factor PD-clustering
Rmetrics - Portfolio Selection and Optimization - ebook available at www.rmetrics.org
Computing the noncentrality parameter of the noncentral F distribution
Data for "Forecasting: principles and practice"
Approximation of first-passage-time densities for diffusion processes
Fractionally differenced ARIMA aka ARFIMA(p,d,q) models
Fraction Proliferation via a quiescent growth model
Fractal Time Series Modeling and Analysis
Estimation of fractal dimensions
Generate fractal time series with non-normal returns distribution
Numeric number into fraction
Frailty Models via H-likelihood
General Frailty models: shared, joint and nested frailty models with prediction
Functional response analysis in R
Financial Risk Modelling and Portfolio Optimisation with R
Fast and Robust Bootstrap
Download interest rate data from FRB's website
Fuzzy Rule-based Systems for Classification and Regression Tasks
Fast Regularized Canonical Correlation Analysis
Free-Knot Splines
Statistical algorithms used in common data mining course
Regression Based Decision and Prediction
FREQ: Estimate population size from capture frequencies
Frequency Moving Average Plots (MAP) of Multinomial Data by a Continuous Covariate
Novel Methods for Parallel Coordinates
Working with frequency tables
Fractional Factorial designs with 2-level factors
Catalogues of resolution IV 128 run 2-level fractional factorials up to 33 factors that do have 5-letter
words
Regression analysis of fractional responses
The Generalized Hyperbolic Distribution, Related Distributions and Their Applications in Finance
Stochastic Frontier Analysis
Partial Frontier Efficiency Analysis
Full Randomization Test
Automated caret feature selection
Selecting attributes
Wrapper functions for FSL (FMRIB Software Library) from Functional MRI. of the Brain (FMRIB)
Fuzzy Set Ordination

fSRM
FTICRMS
ftnonpar
fTrading
fts
ftsa
fugeR
fume
fun
FunChisq
FunCluster
Funclustering
FuncMap
functional
FunctionalNetworks
fUnitRoots
funreg
FusedLasso
FusedPCA
futile.any
futile.logger
futile.matrix
futile.options
futile.paradigm
fuzzyFDR
FuzzyNumbers
fuzzyRankTests
FuzzyStatProb
FuzzyToolkitUoN
fwdmsa
FWDselect
fwi.fbp
fwsim
fxregime
g.data
G1DBN
G2Sd
GA
GA4Stratification
GABi
GAD
gains
GAIPE
galts
gam
gamair
gambin

Social Relations Analyses with roles ("Family SRM")

Programs for Analyzing Fourier Transform-Ion Cyclotron Resonance Mass Spectrometry Data
Features and Strings for Nonparametric Regression
Technical Trading Analysis
R interface to tslib (a time series library in c++)
Functional time series analysis
FUzzy GEnetic, a machine learning algorithm to construct prediction model based on fuzzy logic
FUME package
Use R for Fun
Nonparametric functional chi-square tests
Functional Profiling of Microarray Expression Data
A package for functional data clustering
Hive Plots of R Package Function Calls
Curry, Compose, and other higher-order functions
An algorithm for gene and gene set network inference
Trends and Unit Roots
funreg (Functional Regression for Irregularly Timed Data)
Solves the generalized Fused Lasso
Community Detection via Fused Principal Component Analysis
Futile library to provide some polymorphic operations
A logging library for R
Random matrix generation and manipulation
Futile options management
A framework for working in a functional programming paradigm in R
Exact calculation of fuzzy decision rules for multiple testing
Tools to deal with fuzzy numbers
Fuzzy Rank Tests and Confidence Intervals
Fuzzy stationary probabilities from a sequence of observations of an unknown Markov chain
Type 1 Fuzzy Logic Toolkit
Forward search for Mokken scale analysis
Selecting variables in regression models
Fire Weather Index System and Fire Behaviour Prediction System Calculations
Fisher-Wright Population Simulation
Exchange Rate Regime Analysis
Delayed-Data Packages
A package performing Dynamic Bayesian Network inference
Grain-size Statistics and Description of Sediment
Genetic Algorithms
A genetic algorithm approach to determine stratum boundaries and sample sizes of each stratum in
stratified sampling
Framework for Generalized Subspace Pattern Mining
GAD: Analysis of variance from general principles
Gains Table Package
Graphical Extension with Accuracy in Parameter Estimation (GAIPE)
Genetic algorithms and C-steps based LTS (Least Trimmed Squares) estimation
Generalized Additive Models
Data for "GAMs: An Introduction with R"
Fit the GamBin model to species abundance distributions

GAMBoost
gamboostLSS
gamboostMSM
gamclass
games
gamlr
gamlss
gamlss.add
gamlss.cens
gamlss.data
gamlss.demo
gamlss.dist
gamlss.mx
gamlss.nl
gamlss.spatial
gamlss.tr
gamlss.util
gamm4
Gammareg
gammSlice
GANPA
GANPAdata
gaoptim
gap
gaussDiff
gaussquad
gb
GB2
gbm
gbRd
gbs
gcbd
GCD
gcdnet
gcExplorer
gclus
gcmr
gconcord
gcookbook
gdalUtils
gdata
GDAtools
GDELTtools
gdimap
gdistance
gee
geeM

Generalized linear and additive models by likelihood based boosting

Boosting Methods for GAMLSS
Estimating multistate models using gamboost()
Functions and data for a course on modern regression and classification
Statistical Estimation of Game-Theoretic Models
Gamma Lasso Regression
Generalised Additive Models for Location Scale and Shape
GAMLSS Additive
Fitting an interval response variable using gamlss.family distributions
GAMLSS Data
Demos for GAMLSS
Distributions to be used for GAMLSS modelling
A GAMLSS add on package for fitting mixture distributions
Fitting non linear parametric GAMLSS models
Package to fit spatial data in gamlss
Generating and fitting truncated (gamlss.family) distributions
GAMLSS Utilities
Generalized additive mixed models using mgcv and lme4
classic gamma regression: joint modeling of mean and shape parameters
Generalized additive mixed model analysis via slice sampling
Gene Association Network-based Pathway Analysis
The GANPA Datasets Package
Genetic Algorithm optimization for real-based and permutation-based problems
Genetic analysis package
Difference measures for multivariate Gaussian probability density functions
Collection of functions for Gaussian quadrature
Generalize Lambda Distribution and Generalized Bootstrapping
Generalized Beta Distribution of the Second Kind: properties, likelihood, estimation
Generalized Boosted Regression Models
Utilities for processing Rd objects and files
Package for Generalized Birnbaum-Saunders Distributions
GPU/CPU Benchmarking in Debian-based systems
Global Charcoal Database
LASSO and (adaptive) Elastic-Net penalized least squares, logistic regression, HHSVM and squared
hinge loss SVM using a fast GCD algorithm
Graphical Cluster Explorer
Clustering Graphics
Gaussian Copula Marginal Regression
Concord method for Graphical Model Selection
Data for "R Graphics Cookbook"
Wrappers for the Geospatial Data Abstraction Library (GDAL) Utilities
Various R programming tools for data manipulation
A toolbox for the analysis of categorical data in social sciences, and especially Geometric Data Analysis
Download, slice, and normalize GDELT data
Generalized Diffusion Magnetic Resonance Imaging
distances and routes on geographical grids
Generalized Estimation Equation solver
Fit Generalized Estimating Equations

geepack
geigen
geiger
gems
gemtc
gemtc.jar
GenABEL
GenABEL.data
genalg
genasis
GenBinomApps
gendata
GENEAread
GeneCycle
GeneF
GeneFeST
Geneland
geneListPie
GeneNet
genepi
GeneralizedHyperbolic
GeneReg
geneSignatureFinder
genetics
GeneticTools
GenKern
genlasso
genMOSS
genMOSSplus
genomicper
genoPlotR
GenOrd
genridge
GenSA
gensemble
genSurv
geoCount
GeoGenetix
GeoLight
GEOmap
geomapdata
geometry
geomorph
geonames
geophys
geoR
geoRglm

Generalized Estimating Equation Package

Calculate generalized eigenvalues of a matrix pair
Analysis of evolutionary diversification
Generalized multistate simulation model
GeMTC network meta-analysis
GeMTC Java binary
genome-wide SNP association analysis
Package contains data which is used by GenABEL example and test functions
R Based Genetic Algorithm
Global ENvironmental ASsessment Information System (GENASIS) computational tools
Clopper-Pearson Confidence Interval and Generalized Binomial Distribution
Generate and modify synthetic datasets
Package For Reading Binary files
Identification of Periodically Expressed Genes
Package for Generalized F-statistics
Bayesian calculation of gene-specific FST from genomic SNP data
Detection of structure from multilocus genetic data
Profiling a gene list into GOslim or KEGG function pie
Modeling and Inferring Gene Networks
Genetic Epidemiology Design and Inference
The Generalized Hyperbolic Distribution
Construct time delay gene regulatory network
A Gene-signatures finder tools
Population Genetics
Collection of Genetic Data Analysis Tools
Functions for generating and manipulating binned kernel density estimates
Path algorithm for generalized lasso problems
Functions for the Bayesian analysis of GWAS data
Application of MOSS algorithm to genome-wide association study (GWAS)
Circular Genomic Permutation using GWAS p-values of association
Plot publication-grade gene and genome maps
Simulation of ordinal and discrete variables with given correlation matrix and marginal distributions
Generalized ridge trace plots for ridge regression
R functions for Generalized Simulated Annealing
generalized ensemble methods
Generating multi-state survival data
Analysis and Modeling for Geostatistical Count Data
Quantification of the effect of geographic versus environmental isolation on genetic differentiation
Analysis of light based geolocator data
Topographic and Geologic Mapping
Data for topographic and Geologic Mapping
Mesh generation and surface tesselation
Geometric morphometric analyses of 2d/3d landmark data
Interface to www.geonames.org web service
Geophysics, Continuum Mechanics, Mogi Model
Analysis of geostatistical data
geoRglm - a package for generalised linear spatial models

georob
geoscale
geospacom
geosphere
geospt
geostatsp
geotools
geotopbricks
GeoXp
geozoo
GESTr
getopt
GetoptLong
GetR
gettingtothebottom
GEVcdn
GEVStableGarch
GExMap
gfcanalysis
GGally
ggdendro
GGEBiplotGUI
ggHorizon
GGIR
gglasso
ggm
ggmap
ggmcmc
GGMselect
ggparallel
ggplot2
ggROC
ggsubplot
ggtern
ggthemes
ggvis
GhcnDaily
GHQp
ghyp
gibbs.met
GibbsACOV
GIGrvg
GillespieSSA
gIPFrm
giRaph
GISTools

Robust Geostatistical Analysis of Spatial Data

Geological timescale plot
Helper package to facilitate the generation of distance matrices used in the package spacom
Spherical Trigonometry
Spatial geostatistics; some geostatistical and radial basis functions, prediction and cross validation;
design of optimal spatial sampling networks based on geostatistical modelling
Geostatistics using SpatialPoints and rasters
Geo tools
geotopbricks
Interactive exploratory spatial data analysis
Zoo of Geometric Objects
Gene Expression State Transformation
C-like getopt behavior
Parse command-line arguments and variable interpolation
GetR: Calculate Guttman error trees in R
Getting to the Bottom, A Package for Learning Optimization Methods
GEV conditional density estimation network
ARMA-GARCH/APARCH models with GEV and stable distributions
A visual, intuitive, easy to use software giving access to a new type of information buried into your
microarray data
Tools for working with Hansen et al. 2013 Global Forest Change dataset
Extension to ggplot2
Tools for extracting dendrogram and tree diagram plot data for use with ggplot
GGEBiplotGUI: Interactive GGE Biplots in R
An implementation of Horizon Graph
GGIR
Group Lasso Penalized Learning Using A Unified BMD Algorithm
A package for Graphical Markov Models
A package for spatial visualization with Google Maps and OpenStreetMap
Graphical tools for analyzing Markov Chain Monte Carlo simulations from Bayesian inference
Gaussian Graphs Models selection
Variations of Parallel Coordinate Plots for Categorical Data
An implementation of the Grammar of Graphics
package for roc curve plot with ggplot2
Explore complex data by embedding subplots within plots
An extension to ggplot2, for the creation of ternary diagrams
Extra themes, scales and geoms for ggplot
Interactive grammar of graphics
Downloads and processes GHCN daily
Gauss Hermite Quadrature with pruning
A package on the generalized hyperbolic distribution and its special cases
Naive Gibbs Sampling with Metropolis Steps
Gibbs Sampler for One-Way Mixed-Effects ANOVA and ANCOVA Models
Random variate generator for the GIG distribution
Gillespie's Stochastic Simulation Algorithm (SSA)
Generalized Iterative Proportional Fitting for Relational Models
The giRaph package for graph representation in R
Some further GIS capabilities for R

gitter
Giza
glarma
glasso
glassomix
glcm
gld
GLDEX
gldist
glinternet
gllm
glm2
glmc
glmdm
glmlep
glmmBUGS
glmmGS
glmmLasso
glmmML
glmnet
glmnetcr
glmpath
glmpathcr
glmperm
glmulti
glmx
globalboosttest
GlobalDeviance
globalGSA
globalOptTests
glogis
glpkAPI
GLSME
gmatrix
GMCM
gMCP
GMD
Gmisc
gmm
GMMBoost
gmodels
gmp
gmt
gMWT
GNE
gnm
gnmf

an R package for quantification of pinned microbial culture

Constructing panels of population pyramid plots based on lattice
Generalized Linear Autoregressive Moving Average Models
Graphical lasso- estimation of Gaussian graphical models
High dimensional Mixture Graph Models selection
Calculate textures from grey-level co-occurrence matrices (GLCMs) in R
Estimation and use of the generalised (Tukey) lambda distribution
Fitting Single and Mixture of Generalised Lambda Distributions (RS and FMKL) using Various Methods
An Asymmetry-Steepness Parameterization of the Generalized Lambda Distribution
Learning interactions via hierarchical group-lasso regularization
Generalised log-linear model
Fitting Generalized Linear Models
Fitting Generalized Linear Models Subject to Constraints
R Code for Simulation of GLMDM
Fit GLM with LEP-based penalized maximum likelihood
Generalised Linear Mixed Models and Spatial Models with WinBUGS, BRugs, or OpenBUGS
Gauss-Seidel Generalized Linear Mixed Model solver
Variable selection for generalized linear mixed models by L1-penalized estimation
Generalized linear models with clustering
Lasso and elastic-net regularized generalized linear models
Fit a penalized constrained continuation ratio model for predicting an ordinal response
L1 Regularization Path for Generalized Linear Models and Cox Proportional Hazards Model
Fit a penalized continuation ratio model for predicting an ordinal response
Inference in Generalized Linear Models
Model selection and multimodel inference made easy
Generalized Linear Models Extended
Testing the additional predictive value of high-dimensional data
Global Deviance Permutation Tests
Global Gene-Set Analysis for Association Studies
Objective functions for benchmarking the performance of global optimization algorithms
Fitting and Testing Generalized Logistic Distributions
R Interface to C API of GLPK
Generalized Least Squares with Measurement Error
An R Package for Harnessing GPU Power
Fast estimation of Gaussian Mixture Copula Models
Graph Based Multiple Comparison Procedures
Generalized Minimum Distance of distributions
A few handy misc functions for plots, tables, and more
Generalized Method of Moments and Generalized Empirical Likelihood
Likelihood-based Boosting for Generalized mixed models
Various R programming tools for model fitting
Multiple Precision Arithmetic
Interface between GMT Map-Making Software and R
Generalized Mann-Whitney Type Tests
Computation of generalized Nash equilibria
Generalized Nonlinear Models
Generalized Non-negative Matrix Factorization Based on Renyi Divergence

gnumeric
goalprog
gof
GoFKernel
goft
goftest
GOGANPA
gogarch
googlePublicData
googleVis
gooJSON
goric
GOsummaries
govStatJPN
gpairs
GPArotation
gPCA
gpclib
GPCSIV
gPdtest
GPFDA
GPfit
gpk
gplm
gplots
GPLTR
gpmap
gpr
gProfileR
GPseq
gptk
gputools
GPvam
grade
GRaF
gRain
gramEvol
granova
granovaGG
gRapfa
gRapHD
GrapheR
graphicsQC
GraphPCA
GrassmannOptim
gRbase
gRc

Read data from files readable by gnumeric

Weighted and lexicographical goal programming and optimization
Model-diagnostics based on cumulative residuals
GoFKernel: Testing Goodness-of-fit with the Kernel Density Estimator
Tests of fit for some probability distributions
Classical Goodness-of-Fit Tests for Univariate Distributions
GO-Functional-Network-based Gene-Set-Analysis
Generalized Orthogonal GARCH (GO-GARCH) models
An R library to build Google's Public Data Explorer DSPL Metadata files
Interface between R and Google Charts
Google JSON Data Interpreter for R
Generalized Order-Restricted Information Criterion
Word cloud summaries of GO enrichment analysis
functions to get public survey data in Japan
gpairs: The Generalized Pairs Plot
GPA Factor Rotation
Batch Effect Detection via Guided Principal Components Analysis
General Polygon Clipping Library for R
GPCSIV, Generalized Principal Component of Symbolic Interval variables
Bootstrap goodness-of-fit test for the generalized Pareto distribution
Apply Gaussian Process in Functional data analysis
Gaussian Processes Modeling
100 Data Sets for Statistics Education
Generalized partial linear models (GPLM)
Various R programming tools for plotting data
Generalized Partially Linear Tree-based Regression Model
Analysing and plotting genotype-phenotype maps
A Minimalistic package to apply Gaussian Process in R
R interface to the g:Profiler toolkit
gpseq: Using the generalized Poisson distribution to model sequence read counts from high throughput
sequencing experiments
Gaussian Processes Tool-Kit
A few GPU enabled functions
Maximum Likelihood Estimation of Multiple Membership Mixed Models Used in Value-Added Modeling
Binary Grading functions for R
Species distribution modelling using latent Gaussian random fields
Graphical Independence Networks
Grammatical Evolution For R
Graphical Analysis of Variance
Graphical Analysis of Variance Using ggplot2
Acyclic Probabilistic Finite Automata
Efficient selection of undirected graphical models for high-dimensional datasets
A multi-platform GUI for drawing customizable graphs in R
Quality Control for Graphics in R
GraphPCA, Graphical tools of histogram PCA
Grassmann Manifold Optimization
A package for graphical modelling in R
Inference in Graphical Gaussian Models with Edge and Vertex Symmetries

greport
Grid2Polygons
gridBase
gridDebug
gridExtra
gridGraphviz
gridSVG
GriegSmith
gRim
grImport
grnn
groc
grofit
grouped
GroupSeq
growcurves
growthmodels
growthrate
grplasso
grppenalty
grpreg
grt
GRTo
GSA
GSAgm
gsalib
gsarima
gsbDesign
gsDesign
GSE
gSeg
gset
gsg
GSIF
gskat
gsl
GSM
gsmaRt
gsmoothr
gss
gsscopu
gstat
gstudio
gsubfn
gtable
gtcorr
gte

Graphical Reporting for Clinical Trials

Convert Spatial Grids to Polygons
Integration of base and grid graphics
Debugging Grid Graphics
functions in Grid graphics
Drawing Graphs with Grid
Export grid graphics as SVG
Uses Grieg-Smith method on 2 dimentional spatial data
Graphical Interaction Models
Importing Vector Graphics
General regression neural network
Generalized Regression on Orthogonal Components
The package was developed to fit fit many growth curves obtained under different conditions
Regression Analysis of Grouped and Coarse Data
A GUI-based program to compute probabilities regarding group sequential designs
Bayesian semi and nonparametric growth curve models that additionally include multiple membership
random effects
Nonlinear Growth Models
Bayesian reconstruction of growth velocity
Fitting user specified models with Group Lasso penalty
Concave 1-norm and 2-norm group penalty in linear and logistic regression
Regularization paths for regression models with grouped covariates
General Recognition Theory
Tools for the analysis of Gutenberg-Richter distributions of earthquake magnitudes
Gene set analysis
Gene Set Analysis using the Gamma Method
Utility functions for GATK
Two functions for Generalized SARIMA time series simulation
Group Sequential Bayes Design
Group Sequential Design
Robust Estimation of Multivariate Location and Scatter in the Presence of Missing Data
Graph-Based Change-Point Detection (g-Segmentation)
Group Sequential Design in Equivalence Studies
Calculation of selection coefficients
Global Soil Information Facilities
GEE_KM
wrapper for the Gnu Scientific Library
Gamma Shape Mixture
Gene Set Microarray Testing
Smoothing tools
General Smoothing Splines
Copula Density and 2-D Hazard Estimation using Smoothing Splines
spatial and spatio-temporal geostatistical modelling, prediction and simulation
Analyses and functions related to the spatial analysis of genetic marker data
Utilities for strings and function arguments
Arrange grobs in tables
Calculate efficiencies of group testing algorithms with correlated responses
Generalized Turnbull's estimator

gtools
gtx
GuardianR
Guerry
GUIDE
gumbel
GUniFrac
GUTS
gvcm.cat
gvlma
GWAF
GWASExactHW
GWAtoolbox
gwerAM
GWG
gWidgets
gWidgets2
gWidgets2RGtk2
gWidgets2tcltk
gWidgetsRGtk2
gWidgetstcltk
gWidgetsWWW
GWmodel
GWRM
gwrr
GWsignif
GxM
h2o
haarfisz
HAC
HadoopStreaming
hamlet
HandTill2001
Hankel
HAP.ROR
hapassoc
HapEstXXR
HAPim
Haplin
haplo.ccs
haplo.stats
HaploSim
hapsim
HardyWeinberg
harvestr
hash
hashFunction

Various R programming tools

Genetics ToolboX
The Guardian API Wrapper
Maps, data and methods related to Guerry (1833) "Moral Statistics of France"
GUI for DErivatives in R
Gumbel copula
Generalized UniFrac distances
GUTS: Fast Calculation of the Likelihood of a Stochastic Survival Model
Regularized Categorial Effects/Categorial Effect Modifiers/Continuous/Smooth effects in GLMs
Global Validation of Linear Models Assumptions
Genome-wide association/interaction analysis and rare variant analysis with family data
Exact Hardy-Weinburg testing for Genome Wide Association Studies
GWAS Quality Control
Controlling the genome-wide type I error rate in association mapping experiments
Calculation of probabilities for inadequate and excessive gestational weight gain
gWidgets API for building toolkit-independent, interactive GUIs
Rewrite of gWidgets API for simplified GUI construction
Implementation of gWidgets2 for RGtk2 package
Toolkit implementation of gWidgets2 for tcltk package
Toolkit implementation of gWidgets for RGtk2
Toolkit implementation of gWidgets for tcltk package
Toolkit implementation of the gWidgets API for use with web pages
Geographically weighted models
GWRM
Fits geographically weighted regression models with diagnostic tools
Genome-wide significance for whole genome sequencing studies
Maximum Likelihood Estimation for Gene-by-Measured Environment Interaction Models
H2O R Interface
Software to perform Haar Fisz transforms
Estimation, simulation and visualization of Hierarchical Archimedean Copulae (HAC)
Utilities for using R scripts in Hadoop streaming
Hierarchical Optimal Matching and Machine Learning Toolbox
Multiple Class Area under ROC Curve
Univariate non-parametric two-sample test based on empirical Hankel transforms
Recursive Organizer (ROR)
Inference of trait associations with SNP haplotypes and other attributes using the EM Algorithm
Multi-locus stepwise regression (MSR)
HapIM
Analyzing case-parent triad and/or case-control data with SNP haplotypes
Estimate Haplotype Relative Risks in Case-Control Data
Statistical Analysis of Haplotypes with Traits and Covariates when Linkage Phase is Ambiguous
Functions to simulate haplotypes
Haplotype Data Simulation
Graphical tests for Hardy-Weinberg equilibrium
A Parallel Simulation Framework
Full feature implementation of hash/associated arrays/dictionaries
A collection of non-cryptographic hash functions

hasseDiagram
hawkes
hazus
hbim
hbmem
hbsae
HBSTM
hcc
hcci
hda
HDclassif
hddplot
hdeco
hdi
hdlm
HDMD
hdrcde
HDtweedie
HEAT
heatex
heatmap.plus
heatmap3
heatmapFit
heavy
helloJavaWorld
helsinki
heplots
hergm
het.test
hett
hexbin
hexView
hflights
hgam
hglasso
hglm
HGNChelper
HH
HHG
hht
HI
HIBAG
HiClimR
HiCseg
hiddenf
HiddenMarkov
hier.part

Drawing Hasse diagram

Hawkes process simulation and calibration toolkit
Damage functions from FEMA's HAZUS software for use in modeling financial losses from natural
disasters
Hill/Bliss Independence Model for Combination Vaccines
Hierarchical Bayesian Analysis of Recognition Memory
Hierarchical Bayesian Small Area Estimation
Hierarchical Bayesian Space-Time models for Gaussian space-time data
Hidden correlation check
Interval estimation for the parameters of linear models with heteroskedasticity (Wild Bootstrap)
Heteroscedastic Discriminant Analysis
High Dimensional Supervised Classification and Clustering
Use known groups in high-dimensional data to derive scores for plots
Hierarchical DECOmposition of Entropy for Categorical Map Comparisons
High-Dimensional Inference
Fitting High Dimensional Linear Models
Statistical Analysis Tools for High Dimension Molecular Data (HDMD)
Highest density regions and conditional density estimation
The Lasso for the Tweedie's Compound Poisson Model Using an IRLS-BMD Algorithm
Health Effects of Air Pollution and Temperature (HEAT)
Heat exchange calculations during physical activity
Heatmap with more sensible behavior
A improved heatmap package
Heatmap Fit Statistic For Binary Dependent Variable Models
Package for outliers accommodation using heavy-tailed distributions
Hello Java World
Helsinki open data R tools
Visualizing Hypothesis Tests in Multivariate Linear Models
Hierarchical Exponential-Family Random Graph Models with Local Dependence
White's Test for Heteroskedasticity
Heteroscedastic t-regression
Hexagonal Binning Routines
Viewing Binary Files
Flights that departed Houston in 2011
High-dimensional Additive Modelling
Learning graphical models with hubs
Hierarchical Generalized Linear Models
Handy functions for working with HGNC gene symbols and Affymetrix probeset identifiers
Statistical Analysis and Data Display: Heiberger and Holland
Heller-Heller-Gorfine Tests of Independence
The Hilbert-Huang Transform: Tools and Methods
Simulation from distributions supported by nested hyperplanes
HIBAG HLA Genotype Imputation with Attribute Bagging
Hierarchical Climate Regionalization: An Improved Hierarchical Clustering in R for Climate
Regionalization
Detection of domains in HiC data
The hidden F-test for nonadditivity
Hidden Markov Models
Hierarchical Partitioning

hierarchicalDS
hierfstat
hierNet
HIest
highfrequency
highlight
highr
highriskzone
HiLMM
hint
HiPLARM
hiPOD
hisemi
HistData
histogram
HistogramTools
hitandrun
HIV.LifeTables
hive
HiveR
HK80
HLMdiag
hlr
HLSM
hmeasure
Hmisc
HMM
hmm.discnp
HMMCont
hmmm
HMMpa
HMP
HMPTrees
HMR
hoardeR
holdem
Holidays
homals
homeR
homtest
HotDeckImputation
Hotelling
hotspots
howmany
HPbayes
HPO.db

Functions for performing hierarchical analysis of distance sampling data

Estimation and tests of hierarchical F-statistics
A Lasso for Hierarchical Interactions
Hybrid index estimation
highfrequency
Syntax highlighter
Syntax highlighting for R
Determining and evaluating high-risk zones
Estimation of heritability in high dimensional Linear Mixed Models
Tools for hypothesis testing based on Hypergeometric Intersection distributions
High Performance Linear Algebra in R
hierarchical Pooled Optimal Design
Hierarchical Semiparametric Regression of Test Statistics
Data sets from the history of statistics and data visualization
Construction of regular and irregular histograms with different options for automatic choice of bins
Utility Functions for R Histograms
"Hit and Run" method for sampling uniformly from convex shapes
HIV calibrated model life tables for countries with generalized HIV epidemics
Hadoop InteractiVE
2D and 3D Hive Plots for R
Conversion Tools for HK80 Geographical Coordinate System
Diagnostic tools for hierarchical (multilevel) linear models
Hidden Logistic Regression
Hierarchical latent space network model (HLSM)
The H-measure and other scalar classification performance metrics
Harrell Miscellaneous
HMM - Hidden Markov Models
Hidden Markov models with discrete non-parametric observation distributions
Hidden Markov Model for Continuous Observations Processes
hierarchical multinomial marginal models
Analysing accelerometer data using hidden Markov models
Hypothesis Testing and Power Calculations for Comparing Metagenomic Samples from HMP
Statistical Object Oriented Data Analysis of RDP-based Taxonomic trees from Human Microbiome Data:
Modeling, Visualization, and Two-Group Comparison
Flux estimation with static chamber data
hoardeR package
Texas Holdem simulator
Holiday and halfday data, for use with the TimeWarp package
Gifi Methods for Optimal Scaling
Functions useful for building physics
Homogeneity tests for Regional Frequency Analysis
Hot Deck Imputation Methods for Missing Data
Hotelling's T-squared test and variants
Hot spots
A lower bound for the number of correct rejections
Heligman Pollard mortality model parameter estimation using Bayesian Melding with Incremental
Mixture Importance Sampling
A set of annotation maps describing the Human Phenotype Ontology

hpoPlot
HPOSim
hqmisc
hrr
HSAUR
HSAUR2
HSAUR3
hSDM
hsicCCA
hsmm
hsphase
HSROC
htmltools
HTMLUtils
hts
HTSCluster
HTSDiff
httpRequest
httpuv
httr
huge
HUM
humanFormat
HW.pval
hwde
HWEBayes
HWEintrinsic
hwriter
hwriterPlus
hybridEnsemble
hybridHclust
HybridMC
hydroApps
hydrogeo
hydroGOF
HydroMe
hydroPSO
hydroTSM
HyperbolicDist
hyperdirichlet
hypergea
hypergeo
hyperSpec
hypervolume
HyPhy
hypothesestest

Functions to plot graphviz style graphs of sets of HPO terms

Analysis semantic similarity between HPO terms and HPO-based phenotypic similarity between genes
and between diseases
Miscellaneous convenience functions and dataset
Horizontal rule for the R language
A Handbook of Statistical Analyses Using R
A Handbook of Statistical Analyses Using R (2nd Edition)
A Handbook of Statistical Analyses Using R (3rd Edition)
hierarchical Bayesian species distribution models
Canonical Correlation Analysis based on Kernel Independence Measures
Hidden Semi Markov Models
Phasing, sire imputation, recombination events identification and pedigree reconstruction of half-sib
families using SNP data
Joint meta-analysis of diagnostic test sensitivity and specificity with or without a gold standard reference
test
Tools for HTML
Facilitates automated HTML report creation
Hierarchical and grouped time series
Clustering high throughput sequencing (HTS) data
Differential analysis of RNA-seq data with Poisson mixture models
Basic HTTP Request
HTTP and WebSocket server library
Tools for working with URLs and HTTP
High-dimensional Undirected Graph Estimation
compute HUM value and visualize ROC curves
Human-friendly formatting functions
Testing Hardy-Weinberg Equilibrium for Multiallelic Genes
Models and tests for departure from Hardy-Weinberg equilibrium and independence between loci
Bayesian investigation of Hardy-Weinberg Equilibrium via estimation and testing
Objective Bayesian Testing for the Hardy-Weinberg Equilibrium Problem
HTML Writer - Outputs R objects in HTML format
hwriterPlus: Extending the hwriter Package
Build, deploy and evaluate a Hybrid Ensemble
Hybrid hierarchical clustering
Implementation of the Hybrid Monte Carlo and Multipoint Hybrid Monte Carlo sampling techniques
Tools and models for hydrological applications
Groundwater data presentation and interpretation
Goodness-of-fit functions for comparison of simulated and observed hydrological time series
R codes for estimating water retention and infiltration model parameters using experimental data
Particle Swarm Optimisation, with focus on Environmental Models
Time series management, analysis and interpolation for hydrological modelling
The hyperbolic distribution
A generalization of the Dirichlet distribution
Hypergeometric tests
The hypergeometric function
Interface for hyperspectral data, i.e. spectra + meta info (spatial, time, concentration, ...)
High-dimensional kernel density estimation and geometry operations
Macroevolutionary phylogentic analysis of species trees and gene trees
Confidence Intervals and Tests of Statistical Hypotheses

hypred
hysteresis
hzar
IASD
IAT
ibd
IBDhaploRtools
ibdreg
IBDsim
IBHM
Iboot
ibr
IBrokers
iBUGS
ic.infer
iC10
iC10TrainingData
IC2
ic50
icamix
icaOcularCorrection
icapca
ICC
icd9
ICE
ICEbox
ICEinfer
icensmis
ICGE
iCluster
icomp
ICS
ICSNP
ICsurv
idbg
identity
IDPmisc
idr
iDynoR
ieeeround
ifa
iFad
ifs
ifultools
iGasso
IgorR
igraph

Simulation of genomic data in applied genetics

Tools for Modeling Rate-Dependent Hysteretic Processes and Ellipses
Hybrid Zone Analysis using R
Model selection for index of asymmetry distribution
Functions to use with data from the Implicit Association Test
INCOMPLETE BLOCK DESIGNS
Functions for the Analysis of IBD Haplo output
Regression Methods for IBD Linkage With Covariates
Simulation of chromosomal regions shared by family members
Approximation using the IBHM method
Iboot: iterated bootstrap tests and confidence sets
Iterative Bias Reduction
R API to Interactive Brokers Trader Workstation
An Interface to WinBUGS/OpenBUGS/JAGS by gWidgets
Inequality constrained inference in linear normal situations
A copy number and expression-based classifier for breast tumours
Training datasets for iC10 package
Inequality and Concentration Indices and Curves
Standardized high-throughput evaluation of cell-based compound screens
Estimation of ICA Mixture Models
Independent Components Analysis (ICA) based artifact correction
Mixed ICA/PCA
Functions facilitating the estimation of the Intraclass Correlation Coefficient
tools for working with ICD-9 codes, and finding comorbidities
Iterated Conditional Expectation
Individual Conditional Expectation Plot Toolbox
Incremental Cost-Effectiveness (ICE) Statistical Inference from Two Unbiased Samples
Study Design and Data Analysis in the presence of error-prone diagnostic tests and self-reported
outcomes
Estimation of number of clusters and identification of atypical units
Integrative clustering of multiple genomic data types
ICOMP criterion
Tools for Exploring Multivariate Data via ICS/ICA
Tools for Multivariate Nonparametrics
A package for semiparametric regression analysis of interval-censored data
R debugger
Jacquard Condensed Coefficients of Identity
Utilities of Institute of Data Analyses and Process Design (www.idp.zhaw.ch)
Irreproducible discovery rate
R Analysis package for iDynoMiCS Simulation Results
Functions to set and get the IEEE rounding mode
Independent Factor Analysis
An integrative factor analysis model for drug-pathway association inference
Iterated Function Systems
Insightful Research Tools
Genetic association tests and utilities
Read binary files saved by Igor Pro (including Neuromatic data)
Network analysis and visualization

igraphdata
igraphtosonia
IM
Imap
imguR
IMIS
ImpactIV
imprProbEst
imputeMDR
imputeR
imputeYn
in2extRemes
inarmix
incReg
IndependenceTests
indicspecies
ineq
InfDim
inference
InferenceSMR
inflection
influence.ME
influence.SEM
infoDecompuTE
informR
infotheo
infutil
INLABMA
inline
inlinedocs
InPosition
insideRODE
insol
installr
intamap
intamapInteractive
intcox
integrOmics
Interact
InteractiveIGraph
intergraph
Interpol
Interpol.T
InterVA4
interval
intervals

A collection of network data sets for the igraph package

Convert iGraph graps to SoNIA .son files
Orthogonal Moment Analysis
Interactive Mapping
Share plots using the imgur.com image hosting service
Increamental Mixture Importance Sampling
Identifying Causal Effect for Multi-Component Intervention Using Instrumental Variable Method
Minimum distance estimation in an imprecise probability model
The Multifactor Dimensionality Reduction (MDR) Analysis for Incomplete Data
A General Imputation Framework in R
Imputing the last largest censored observation/observations under weighted least squares
Into the extRemes Package
Mixture models for longitudinal count data
Incremental Multivariate Regression
Nonparametric tests of independence between random vectors
Studying the statistical relationship between species and groups of sites
Measuring Inequality, Concentration, and Poverty
Infine-dimensional model (IDM) to analyse phenotypic variation in growth trajectories
Functions to extract inferential values of a fitted model object
Inference about the standardized mortality ratio when evaluating the effect of a screening program on
survival
Finds the inflection point of a curve
Tools for detecting influential data in mixed effects models
Case Influence in Structural Equation Models
Information Decomposition of Two-phase Experiments
R Tools for Creating Sequence Statistics
Information-Theoretic Measures
Information Utility
Bayesian Model Averaging with INLA
Inline C, C++, Fortran function calls from R
Convert inline comments to documentation
Inference Tests for ExPosition
insideRODE includes buildin functions with deSolve solver and C/FORTRAN interfaces to nlme,
together with compiled codes
Solar Radiation
Using R to install stuff (such as: R, Rtools, RStudio, git, and more!)
procedures for automated interpolation
procedures for automated interpolation - methods only to be used interactively, not included in intamap
package
Iterated Convex Minorant Algorithm for interval censored event data
end of integrOmics package
Tests for marginal interactions in a 2 class response model
interactive network analysis and visualization
Coercion routines for network data objects in R
Interpolation of amino acid sequences
Hourly interpolation of multiple temperature daily series
Replicate and analyse InterVA4
Weighted Logrank Tests and NPMLE for interval censored data
Tools for working with points and intervals

interventionalDBN
IntLik
intpoint
intReg
intRegGOF
introgress
intsvy
InventorymodelPackag
e
investr
invGauss
io
ipdmeta
ipdw
ipfp
iplots
IPMpack
ipred
IPSUR
ipw
IQCC
iqLearn
irace
iRefR
iRegression
iRepro
irlba
irr
irtoys
irtProb
irtrees
isa2
ISBF
iScreen
ISDA.R
isdals
IsingFit
isingLenzMC
IsingSampler
ISLR
ismev
Iso
IsoCI
isocir
ISOcodes
IsoGene
isopam
isopat

Interventional Inference for Dynamic Bayesian Networks

Numerical Integration for Integrated Likelihood
linear programming solver by the interior point method and graphically (two dimensions)
Interval Regression
Integrated Regression Goodness of Fit
methods for analyzing introgression between divergent lineages
International Assessment Data Manager
Inventorymodel
Inverse estimation/calibration functions
Threshold regression that fits the (randomized drift) inverse Gaussian distribution to survival data
A unified framework for input-output operations in R
Tools for subgroup analyses with multiple trial data using aggregate statistics
ipdw: Interpolation by Inverse Path Distance Weighting
Fast implementation of the iterative proportional fitting procedure in C
iPlots - interactive graphics for R
Builds and analyses Integral Projection Models (IPMs)
Improved Predictors
Introduction to Probability and Statistics Using R
Estimate inverse probability weights
Improved Quality Control Charts
Interactive Q-learning
Iterated Racing Procedures
iRefIndex Manager
Regression methods for interval-valued variables
Reproducibility for Interval-Censored Data
Fast partial SVD by implicitly-restarted Lanczos bidiagonalization
Various Coefficients of Interrater Reliability and Agreement
Simple interface to the estimation and plotting of IRT models
Utilities and Probability Distributions Related to Multidimensional Person Item Response Models
Estimation of Tree-Based Item Response Models
The Iterative Signature Algorithm
Iterative Selection of Blocks of Features - ISBF
image-based High-Throughput RNAi Screening Analysis Tool
interval symbolic data analysis for R
Provides datasets for Introduction to Statistical Data Analysis for the Life Sciences
Fitting Ising models using the eLasso method
Monte Carlo for classical Ising Model
Sampling methods and distribution functions for the Ising model
Data for An Introduction to Statistical Learning with Applications in R
An Introduction to Statistical Modeling of Extreme Values
Functions to perform isotonic regression
Confidence intervals for current status data based on transformations and bootstrap
Isotonic Inference for Circular data
Selected ISO codes
Testing for monotonic relationship between gene expression and doses in a microarray experiment
Isopam (Clustering)
Calculation of isotopic pattern for a given molecular formula

isotone
isotonic.pen
IsotopeR
ISOweek
isva
ISwR
iteRates
iterators
iterLap
iterpc
itertools
itree
its
itsmr
IUPS
ivbma
ivfixed
ivivc
ivlewbel
ivpack
iWeigReg
iwtp
jaatha
jackknifeKME
jackstraw
JADE
JASPAR
JavaGD
JBTools
JGL
JGR
JJcorr
JM
JMbayes
jmec
Jmisc
Johnson
JohnsonDistribution
joineR
jointDiag
jointPm
JointRegBC
JOP
JoSAE
jpeg
JPSurv
jsonlite

Active set and generalized PAVA for isotone optimization

Penalized Isotonic Regression in one and two dimensions
Stable isotope analysis
Week of the year and weekday according to ISO 8601
Independent Surrogate Variable Analysis
Introductory Statistics with R
Parametric rate comparison
Iterator construct for R
Approximate probability densities by iterated Laplace Approximations
Efficient iterator for permutations and combinations
Iterator Tools
Tools for classification and regression trees, with an emphasis on interpretability
Irregular Time Series
Time series analysis package for students
Incorporating Uncertainties in Propensity Scores
Bayesian Instrumental Variable Estimation and Model Determination via Conditional Bayes Factors
Instrumental fixed effect panel data model
A data analysis tool for in vitro-in vivo correlation (IVIVC)
Uses heteroscedasticity to estimate mismeasured and endogenous regressor models
Instrumental Variable Estimation
Improved methods for causal inference and missing data problems
Numerical evaluation willingness to pay based on interval data
A Fast Parameter Estimation Method for Evolutionary Biology
Jackknife estimates of Kaplan-Meier estimators or integrals
Non-parametric Jackstraw for Principal Component Analysis
JADE and other BSS methods as well as some BSS performance criteria
R modules for JASPAR databases: a collection of transcription factor DNA-binding preferences,
modeled as matrices
Java Graphics Device
JBs tools and helper functions
Performs the Joint Graphical Lasso for sparse inverse covariance estimation on multiple classes
JGR - Java GUI for R
Calculates polychorical correlations for several copula families
Joint Modeling of Longitudinal and Survival Data
Joint Modeling of Longitudinal and Time-to-Event Data under a Bayesian Approach
Fit joint model for event and censoring with cluster-level frailties
Julian Miscellaneous Function
Johnson Transformation
Johnson Distribution
Joint modelling of repeated measurements and time-to-event data
Joint Approximate Diagonalization of a set of square matrices
Risk estimation using the joint probability method
Joint Modelling of Mixed Correlated Binary and Continuous Responses : A Latent Variable Approach
Joint Optimization Plot
Functions for some unit-level small area estimators and their variances
Read and write JPEG images
Methods for population-based cancer survival analysis
A smarter JSON encoder/decoder for R

jtrans
JudgeIt
Julia
jvmr
KANT
KappaGUI
kappalab
kappaSize
KappaV
kaps
KATforDCEMRI
kcirt
kdetrees
kedd
kelvin
Kendall
kequate
kerdiest
kernelFactory
kernlab
KernSmooth
KernSmoothIRT
KFAS
KFKSDS
kimisc
kin.cohort
kinfit
kinship2
kintone
kitagawa
kknn
klaR
klausuR
klin
km.ci
kmc
kmconfband
kmi
Kmisc
kml
kml3d
kmlcov
KMsurv
knitcitations
knitr
knitrBootstrap
knnGarden

Johnson transformation for normality

JudgeIt: A Program for Evaluating Electoral Systems and Redistricting Plans
Fractal Image Data Generator
Integration of R, Java, and Scala
Package to identify and sort genes overexpressed
GUI for Cohen's and Fleiss' Kappa
Non-additive measure and integral manipulation functions
Sample Size Estimation Functions for Studies of Interobserver Agreement
Calculates "vectorial Kappa", an index of congruence between patchy mosaics
K-Adaptive Partitioning for Survival data
Kinetic analysis and visualization of DCE-MRI data
k-Cube Thurstonian IRT Models
Nonparametric method for identifying discordant phylogenetic trees
Kernel Estimator and Bandwidth Selection for Density and its Derivatives
Calculate solutions to the Kelvin differential equation using Bessel functions
Kendall rank correlation and Mann-Kendall trend test
The kernel method of test equating
Nonparametric kernel estimation of the distribution function. Bandwidth selection and estimation of
related functions
Kernel Factory: An ensemble of kernel Machines
Kernel-based Machine Learning Lab
Functions for kernel smoothing for Wand & Jones (1995)
Nonparametric Item Response Theory
Kalman Filter and Smoother for Exponential Family State Space Models
Kalman Filter, Smoother and Disturbance Smoother
Kirill's miscellaneous functions
Analysis of kin-cohort studies
Routines for fitting kinetic models to chemical degradation data
Pedigree functions
kintone REST client package for R
Spectral response of water wells to harmonic strain and pressure
Weighted k-Nearest Neighbors
Classification and visualization
Multiple Choice Test Evaluation
Linear equations with Kronecker structure
Confidence intervals for the Kaplan-Meier estimator
Kaplan - Meier estimator with constraints for right censored data a recursive computational algorithm
Kaplan-Meier Simultaneous Confidence Band for the Survivor Function
Kaplan-Meier multiple imputation for the analysis of cumulative incidence functions in the competing
risks setting
Kevin Miscellaneous
K-means for Longitudinal data
K-means for joint Longitudinal data
Clustering longitudinal data using the likelihood as a metric of distance
Data sets from Klein and Moeschberger (1997), Survival Analysis
Citations for knitr markdown files
A general-purpose package for dynamic report generation in R
Knitr Bootstrap framework
Multi-distance based k-Nearest Neighbors

knnIndep
kobe
kohonen
kolmim
KoNLP
koRpus
Kpart
kriging
KrigInv
KRLS
krm
ks
kSamples
KsPlot
kst
ktsolve
ktspair
kulife
kyotil
kza
kzft
kzs
l2boost
labdsv
label.switching
labeledLoop
labeling
labeltodendro
labstatR
laeken
laercio
LaF
laGP
Lahman
lambda.r
lambda.tools
Lambda4
LambertW
lancet.iraqmortality
landsat
languageR
lar
LARF
LargeRegression
lars
laser
lasso2

Independence tests and benchmarks

Tools for the provision of scientific fisheries management advice
Supervised and unsupervised self-organising maps
An improved evaluation of Kolmogorov's distribution
Korean NLP Package
An R Package for Text Analysis
Spline Fitting
Ordinary Kriging
Kriging-based Inversion for Deterministic and Noisy Computer Experiments
Kernel-based Regularized Least squares (KRLS)
Kernel-based Regression Models
Kernel smoothing
K-Sample Rank Tests and their Combinations
Check the power of seveal statistical models
Knowledge Space Theory
Configurable function for solving families of nonlinear equations
k-Top Scoring Pairs for Microarray Classification
Datasets and functions from the (now non-existing) Faculty of Life Sciences, University of Copenhagen
Utility Functions by Youyi & Krisz
Kolmogorov-Zurbenko Adaptive Filters
Kolmogorov-Zurbenko Fourier Transform and Applications
Kolmogorov-Zurbenko Spatial Smoothing and Applications
l2boost - Friedman's boosting algorithm for regularized linear regression
Ordination and Multivariate Analysis for Ecology
Relabelling MCMC outputs of mixture models
Labeled Loop
Axis Labeling
Convert labels or tables to a dendrogram
Libreria del Laboratorio di Statistica con R
Estimation of indicators on social exclusion and poverty
Duncan test, Tukey test and Scott-Knott test
Fast access to large ASCII files
Local Approximate Gaussian Process Regression
Sean Lahman's Baseball Database
Modeling Data with Functional Programming
Tools for modeling data with functional programming
Collection of Internal Consistency Reliability Coefficients
Analyze and Gaussianize skewed, heavy-tailed data
Surveys of Iraq Mortality Published in The Lancet
Radiometric and topographic correction of satellite imagery
Data sets and functions with "Analyzing Linguistic Data: A practical introduction to statistics"
History of labour relations package
LARF: Local Average Response Functions for Estimating Treatment Effects
Large Regressions
Least Angle Regression, Lasso and Forward Stagewise
Likelihood Analysis of Speciation/Extinction Rates from Phylogenies
L1 constrained estimation aka lasso

lassoscore
lassoshooting
latdiag
latentnet
Laterality
lattice
latticeDensity
latticeExtra
LatticeKrig
latticist
lava
lava.tobit
lavaan
lavaan.survey
lawstat
lazy
lazyData
lazyWeave
lbiassurv
LCA
LCAextend
lcd
lcda
LCFdata
lcmm
lctools
lda
ldbounds
LDcorSV
ldDesign
LDExplorer
LDheatmap
ldlasso
LDOD
ldr
LDtests
LeafAngle
leafletR
LEAPFrOG
leapp
leaps
LearnBayes
learningr
leiv
LeLogicielR
lessR
lestat

high-dimensional inference with the penalized score test

L1 regularized regression (Lasso) solver using the Cyclic Coordinate Descent algorithm aka Lasso
Shooting
Draws diagrams useful for checking latent scales
Latent position and cluster models for statistical networks
Functions to calculate common laterality statistics in primatology
Lattice Graphics
Density estimation and nonparametric regression on irregular regions
Extra Graphical Utilities Based on Lattice
Multiresolution Kriging based on Markov random fields
A graphical user interface for exploratory visualisation
Linear Latent Variable Models
LVM with censored and binary outcomes
Latent Variable Analysis
Complex survey Structural Equation Modeling (SEM)
An R package for biostatistics, public policy, and law
Lazy Learning for Local Regression
A LazyData Facility
LaTeX Wrappers for R Users
Length-biased correction to survival curve estimation
Localised Co-Dependency Analysis
Latent Class Analysis (LCA) with familial dependence in extended pedigrees
Learn Chain graphs via Decomposition
Latent Class Discriminant Analysis
Data sets for package LMERConvenienceFunctions
Estimation of extended mixed models using latent classes and latent processes
Local Correlation, Spatial Inequalities and other tools
Collapsed Gibbs sampling methods for topic models
Lan-DeMets Method for Group Sequential Boundaries
Linkage disequilibrium corrected by the structure and the relatedness
Design of experiments for detection of linkage disequilibrium
Efficient Whole-Genome LD Based Haplotpe Block Recognition
Graphical display of pairwise linkage disequilibria between SNPs
LD LASSO Regression for SNP Association Study
Finding Locally D-optimal optimal designs for some nonlinear and generalized linear models
Methods for likelihood-based dimension reduction in regression
Exact tests for Linkage Disequilibrium and Hardy-Weinberg Equilibrium
Fits, plots, and summarizes leaf angle distributions
Interactive web-maps based on the Leaflet JavaScript library
Likelihood Estimation of Admixture in Parents From Offspring Genotypes
latent effect adjustment after primary projection
regression subset selection
Functions for Learning Bayesian Inference
Data and functions to accompany the book "Learning R"
Bivariate linear errors-in-variables estimation
Functions and datasets to accompany the book "Le logiciel R: Maitriser le langage, Effectuer des
analyses statistiques" (french)
Less Code, More Results
A package for LEarning STATistics

letsR
lfe
lfstat
lga
lgarch
lgcp
LGS
lgtdl
lhs
libamtrack
LiblineaR
LICORS
LICurvature
lifecontingencies
LifeTables
LIHNPSD
likelihood
likeLTD
likert
LIM
limitplot
limSolve
LinearizedSVR
lineup
linkcomm
linkim
linLIR
linprog
LINselect
lint
liso
lisp
lisrelToR
list
LIStest
llama
lle
lllcrc
lm.br
lmbc
lme4
lmec
lmeNB
lmeNBBayes
LMERConvenienceFunct
ions
lmerTest

Tools for data handling and analysis in macroecology

Linear Group Fixed Effects
Calculation of Low Flow Statistics for daily stream flow data
Tools for linear grouping analysis (LGA)
Simulation and estimation of log-GARCH models
Log-Gaussian Cox Process
simulating Linkage Group Selection (LGS)
A set of methods for longitudinal data objects
Latin Hypercube Samples
Computational routines for proton and ion radiotherapy
Linear Predictive Models Based On The Liblinear C/C++ Library
Light Cone Reconstruction of States - Predictive State Estimation From Spatio-Temporal Data
Sensitivity Analysis for Case Weight in Normal Linear Regression
A package to perform actuarial mathematics for life contingencies insurances
A package to implement HMD model life table system
Poisson Subordinated Distribution
Methods for maximum likelihood estimation
Tools to determine DNA profile evidence
Functions to analyze and visualize likert type items
Linear Inverse Model examples and solution methods
Jitter/CI Plot with Ordered Points Below the Limit of Detection
Solving Linear Inverse Models
Linearized Support Vector Regression
Lining up two sets of measurements
Tools for Generating, Visualizing, and Analysing Link Communities in Networks
Linkage information based genotype imputation method
linear Likelihood-based Imprecise Regression
Linear Programming / Optimization
Selection of linear estimators
Tools to check R code style
Fitting lasso penalised additive isotone models
List-processing la SRFI-1
Import output from LISREL into R
Statistical Methods for the Item Count Technique and List Experiment
Tests of independence based on the Longest Increasing Subsequence
Leveraging Learning to Automatically Manage Algorithms
Locally linear embedding
Local Log-linear Models for Capture-Recapture
Linear Model with Breakpoint
Linear Model Bias Correction for RNA-Seq Data
Linear mixed-effects models using Eigen and S4
Linear Mixed-Effects Models with Censored Responses
Fit negative binomial mixed-effect regression model
Sample from the posterior of the negative binomial mixed-effect regression model. The random effect is
modeled with DP mixture of beta distributions
A suite of functions to back-fit fixed effects and forward-fit random effects, as well as other
miscellaneous functions
Tests for random and fixed effects for linear mixed effect models (lmer objects of lme4 package)

lmeSplines
LMest
lmf
lmm
lmmfit
lmmlasso
lmms
lmodel2
lmom
lmomco
Lmoments
lmomRFA
lmPerm
lmSupport
lmtest
loa
localdepth
localgauss
localsolver
locfdr
locfit
locits
Lock5Data
locpol
loe
log4r
LogConcDEAD
logconcens
logcondens
logcondens.mode
logcondiscr
logging
LOGICOIL
LogicReg
logistf
LogisticDx
logistiX
LogitNet
logitnorm
loglognorm
logmult
LogrankA
logregperm
logspline
lokern
lomb
longCatEDA

Add smoothing spline modelling capability to nlme

Fit Latent Markov models in basic versions
Functions for estimation and inference of selection in age-structured populations
Linear mixed models
Goodness-of-fit-measures for linear mixed models with one-level-grouping
Linear mixed-effects models with Lasso
Linear mixed effect model splines for modelling and analysis of time course data
Model II Regression
L-moments
L-moments, Censored L-moments, Trimmed L-moments, L-comoments, and Many Distributions
L-moments and quantile mixtures
Regional frequency analysis using L-moments
Permutation tests for linear models
Support for Linear Models
Testing Linear Regression Models
loa: various plots, options and add-ins for use with lattice
Local Depth
Estimating local Gaussian parameters
R API to LocalSolver
Computes local false discovery rates
Local Regression, Likelihood and Density Estimation
Test of stationarity and localized autocovariance
Datasets for "Statistics: UnLocking the Power of Data"
Kernel local polynomial regression
Local Ordinal Embedding
A simple logging system for R, based on log4j
Log-concave Density Estimation in Arbitrary Dimensions
Maximum likelihood estimation of a log-concave density based on censored data
Estimate a Log-Concave Probability Density from iid Observations
Compute MLE of Log-Concave Density on R with Fixed Mode, and Perform Inference for the Mode
Estimate a Log-Concave Probability Mass function from Discrete i.i.d. Observations
R logging package
LOGICOIL: multi-state prediction of coiled-coil oligomeric state
Logic Regression
Firth's bias reduced logistic regression
Diagnostic tests for logistic regression models
Exact logistic regression including Firth correction
Infer network based on binary arrays using regularized logistic regression
Functions for the logitnormal distribution
Double log normal distribution functions
Log-multiplicative models, including association models
Logrank Test for Aggregated Survival Data
Inference in Logistic Regression
Logspline density estimation routines
Kernel Regression Smoothing with Local or Global Plug-in Bandwidth
Lomb-Scargle Periodogram
Package for Plotting Categorical Longitudinal and Time-Series Data

longclust
longitudinal
longitudinalData
longmemo
longpower
loop
LoopAnalyst
lordif
lorec
LOST
LowRankQP
lpc
LPCM
lpint
LPmerge
lpmodeler
lpridge
LPS
lpSolve
lpSolveAPI
LPStimeSeries
lqa
lqmm
lrmest
LS2W
LS2Wstat
lsa
LSAfun
LSC
LSD
lsdv
lsgl
lshorth
lsmeans
LSMonteCarlo
lspls
lsr
lss
ltbayes
ltm
ltmle
LTPDvar
LTR
ltsa
ltsbase
ltsk
lubridate

Model-Based Clustering and Classification for Longitudinal Data

Analysis of Multiple Time Course Data
Longitudinal Data
Statistics for Long-Memory Processes (Jan Beran) Data and Functions
Sample size calculations for longitudinal data
loop decomposition of weighted directed graphs for life cycle analysis, providing flexbile network plotting
methods, and analyzing food chain properties in ecology
A collection of tools to conduct Levins' Loop Analysis
Logistic Regression Differential Item Functioning using IRT
LOw Rand and sparsE Covariance matrix estimation
Missing morphometric data simulation and estimation
Low Rank Quadratic Programming
Lassoed principal components for testing significance of features
Local principal curve methods
Local polynomial estimators of intensity function or its derivatives
Merging linkage maps by linear programming
Modeler for linear programs (LP) and mixed integer linear programs (MILP)
Local Polynomial (Ridge) Regression
Linear Predictor Score, for binary inference from multiple continuous variables
Interface to Lp_solve v. 5.5 to solve linear/integer programs
R Interface for lp_solve version 5.5.2.0
Learned Pattern Similarity and Representation for Time Series
Penalized Likelihood Inference for GLMs
Linear Quantile Mixed Models
Different types of estimators to deal with multicollinearity
Locally stationary two-dimensional wavelet process estimation scheme
A Multiscale Test of Spatial Stationarity for LS2W processes
Latent Semantic Analysis
Applied Latent Semantic Analysis (LSA) functions
Local Statistical Complexity - Automatic Pattern Discovery in Spatio-Temporal Data
Lots of Superior Depictions
Least square dummy variable regression
Linear sparse group lasso
The Length of the Shorth
Least-Squares Means
American options pricing with Least Squares Monte Carlo method
LS-PLS Models
Companion package to "Learning Statistics with R"
the accelerated failure time model to right censored data based on least-squares principle
Simulation-Based Bayesian Inference for Latent Traits of Item Response Models
Latent Trait Models under IRT
Longitudinal Targeted Maximum Likelihood Estimation
LTPD and AOQL plans for acceptance sampling inspection by variables
Perform LTR analysis on microarray data
Linear time series analysis
Ridge and Liu Estimates based on LTS (Least Trimmed Squares) Method
local time space kriging
Make dealing with dates a little easier

luca
Luminescence
lvm4net
LVMMCOR
LVQTools
lxb
lymphclon
M3
MAc
MAclinical
MAd
mada
MADAM
madsim
Maeswrap
magic
magicaxis
magma
magrittr
mail
mailR
MAINT.Data
makeProject
malaria.em
MALDIquant
MALDIquantForeign
mallet
MAMA
MAMS
MAMSE
Mangrove
ManyTests
Map2NCBI
MAPA
mapdata
MapGAM
MAPLES
mapmisc
mapplots
mapproj
maps
mapStats
maptools
maptpx
maptree
mAr
mar1s

Likelihood inference from case-control data Under Covariate Assumptions (LUCA)

Package for Luminescence Dating data analysis
Latent Variable Models for Networks
A Latent Variable Model for Mixed Continuous and Ordinal Responses
Learning Vector Quantization Tools
Fast LXB file reader
Accurate Estimation of Clonal Coincidences and Abundances from Biological Replicates
Reading M3 files
Meta-Analysis with Correlations
Class prediction based on microarray data and clinical parameters
Meta-Analysis with Mean Differences
Meta-Analysis of Diagnostic Accuracy (mada)
This package provides some basic methods for meta-analysis
A Flexible Microarray Data Simulation Model
Wrapper functions for MAESTRA/MAESPA
create and investigate magic squares
Pretty scientific plotting with minor-tick and log minor-tick support
Matrix Algebra on GPU and Multicore Architectures
magrittr - a forward-pipe operator for R
Sending Email Notifications from R
A utility to send emails from R
Model and Analize Interval Data
Creates an empty package framework for the LCFD format
EM Estimation of Malaria Haplotype Probabilities from Multiply Infected Human Blood Samples
Quantitative Analysis of Mass Spectrometry Data
Import/Export routines for MALDIquant
A wrapper around the Java machine learning tool MALLET
Meta-Analysis of MicroArray
Designing Multi-Arm Multi-Stage Studies
Calculation of Minimum Averaged Mean Squared Error (MAMSE) weights
Risk prediction on trees
Multiple testing procedures of Cox (2011) and Wang and Cox (2007)
Mapping Markers to the Nearest Genomic Feature
Multiple Aggregation Prediction Algorithm
Extra Map Databases
Mapping Smoothed Effect Estimates from Individual-Level Data
Smoothed age profile estimation
Utilities for producing maps
Data visualisation on maps
Map Projections
Draw Geographical Maps
Geographic display of survey data statistics
Tools for reading and handling spatial objects
MAP estimation of topic models
Mapping, pruning, and graphing tree models
Multivariate AutoRegressive analysis
Multiplicative AR(1) with Seasonal Processes

marelac
marg
margie
marginalmodelplots
markdown
marked
MarkedPointProcess
maRketSim
markovchain
MarkowitzR
marmap
marqLevAlg
MARSS
maSAE
MASS
MASSI
MASSTIMATE
MasterBayes
MAT
Matching
MatchIt
mathgraph
maticce
matie
matlab
Matrix
matrixcalc
MatrixEQTL
MatrixModels
matrixpls
matrixStats
MATTOOLS
MAVTgsa
MaXact
maxent
maxLik
maxlike
maxstat
MBA
mbbefd
MBCluster.Seq
MBESS
mbest
MBI
mblm
MBmca
mbmdr

Tools for Aquatic Sciences

Approximate marginal inference for regression-scale models
Log Marginal Likelihood of Gaussian Mixture
Marginal Mean Model Plots
Markdown rendering for R
R Code for mark-recapture analysis
Analysis of Marks of Marked Point Processes
Market simulator for R
A package to handle and analyse discrete Markov chains
Statistical significance of the Markowitz portfolio
Import, plot and analyze bathymetric and topographic data
An algorithm for least-squares curve fitting
Multivariate Autoregressive State-Space Modeling
Mandallaz' model-assisted small area estimators
Support Functions and Datasets for Venables and Ripley's MASS
MicroArray Sample Sex Identifier
Body Mass Estimation Equations for Vertebrates
ML and MCMC Methods for Pedigree Reconstruction and Analysis
Multidimensional Adaptive Testing (MAT)
Multivariate and Propensity Score Matching with Balance Optimization
MatchIt: Nonparametric Preprocessing for Parametric Casual Inference
Directed and undirected graphs
Mapping Transitions in Continuous Character Evolution
Measuring Association and Testing Independence Efficiently
MATLAB emulation package
Sparse and Dense Matrix Classes and Methods
Collection of functions for matrix calculations
MatrixEQTL: Ultra fast eQTL analysis via large matrix operations
Modelling with Sparse And Dense Matrices
Matrix-based Partial Least Squares estimation
Methods that apply to rows and columns of a matrix
Modern Calibration Functions for the Modern Analog Technique (MAT)
Three methods to identify differentially expressed gene sets, ordinary least square test, Multivariate
Analysis Of Variance test with n contrasts and Random forest
Exact max-type Cochran-Armitage trend test(CATT)
Low-memory Multinomial Logistic Regression with Support for Text Classification
Maximum Likelihood Estimation
Model species distributions by estimating the probability of occurrence using presence-only data
Maximally Selected Rank Statistics
Multilevel B-spline Approximation
MBBEFD distribution and exposure curve
Model-Based Clustering for RNA-seq Data
MBESS
Moment-Based Estimation for Hierarchical Models
(M)ultiple-site (B)iodiversity (I)ndices Calculator
Median-Based Linear Models
Nucleic Acid Melting Curve Analysis on Microbead Surfaces with R
Model Based Multifactor Dimensionality Reduction

mboost
mc2d
MC2toPath
MCAPS
mcbiopi
mcc
mcclust
MCDA
mcga
mcgibbsit
mcGlobaloptim
mcheatmaps
MChtest
mcIRT
mcll
mclogit
mclust
mcmc
MCMC.OTU
MCMC.qpcr
MCMCglmm
MCMChybridGP
MCMCpack
mcmcplots
mcmcse
mco
Mcomp
MConjoint
MCPAN
McParre
MCPerm
MCPMod
mcprofile
mcr
mcsm
McSpatial
mda
mdatools
mded
MDM
MDPtoolbox
MDR
MDSGUI
meboot
mederrRank
mediation
MedOr

Model-Based Boosting
Tools for Two-Dimensional Monte-Carlo Simulations
Translates information from netcdf files with MC2 output into inter-PVT transitions
MCAPS data and results
Matrix Computation Based Identification Of Prime Implicants
Moment Corrected Correlation
Process an MCMC Sample of Clusterings
MCDA
Machine coded genetic algorithms for real-valued optimization problems
Warnes and Raftery's MCGibbsit MCMC diagnostic
Global optimization using Monte Carlo and Quasi Monte Carlo simulation
Multiple matrices heatmap visualization
Monte Carlo hypothesis tests with Sequential Stopping
IRT models for multiple choice items (mcIRT)
Monte Carlo Local Likelihood Estimation
Mixed Conditional Logit
Normal Mixture Modeling for Model-Based Clustering, Classification, and Density Estimation
Markov Chain Monte Carlo
Bayesian analysis of multivariate counts data
Bayesian analysis of qRT-PCR data
MCMC Generalised Linear Mixed Models
Hybrid Markov chain Monte Carlo using Gaussian Processes
Markov chain Monte Carlo (MCMC) Package
Create Plots from MCMC Output
Monte Carlo Standard Errors for MCMC
Multi criteria optimization algorithms and related functions
Data from the M-competitions
Conjoint Analysis through Averaging of Multiple Analyses
Multiple comparisons using normal approximation
Run a Regenerative Markov chain in Parallel on a Cluster
A Monte Carlo permutation method for multiple test correlation
Design and Analysis of Dose-Finding Studies (see also DoseFinding package)
Multiple Contrast Profiles
Method Comparison Regression
Functions for Monte Carlo Methods with R
Nonparametric spatial data analysis
Mixture and flexible discriminant analysis
Multivariate data analysis for chemometrics
Measuring the difference between two empirical distributions
Multinomial Diversity Model
Markov Decision Processes toolbox
Detect gene-gene interactions using multifactor dimensionality reduction
A GUI for interactive MDS in R
Maximum Entropy Bootstrap for Time Series
Bayesian Methods for Identifying the Most Harmful Medication Errors
R Package for Causal Mediation Analysis
Median Ordering Statistical R package

medSTC
MEET
mefa
mefa4
meifly
mem
memgene
memisc
memoise
MEMSS
memuse
MergeGUI
merror
MESS
meta
MetABEL
MetabolAnalyze
metabolomics
metacom
metacor
MetaDE
metafor
metagen
metaLik
metaMA
metamisc
metap
MetaPCA
MetaQC
metaRNASeq
metasens
MetaSKAT
metatest
Metatron
meteogRam
Meth27QC
MethComp
Methplot
Metrics
metRology
metrumrg
mets
MetSizeR
MetStaT
mewAvg
MExPosition
MF

A max-margin supervised Sparse Topical Coding Model

MEET: Motif Elements Estimation Toolkit
Multivariate Data Handling in Ecology and Biogeography
Multivariate Data Handling with S4 Classes and Sparse Matrices
Interactive model exploration using GGobi
Moving Epidemics Method R Package
Spatial pattern detection in genetic distance data using Moran's Eigenvector Maps
Tools for Management of Survey Data, Graphics, Programming, Statistics, and Simulation
Memoise functions
Data sets from Mixed-effects Models in S
Estimate the memory usage of dense, in-core, numeric objects
A GUI for Merging Datasets in R
Accuracy and Precision of Measurements
Miscellaneous esoteric statistical scripts
Meta-Analysis with R
Meta-analysis of genome-wide SNP association results
Probabilistic latent variable models for metabolomic data
A collection of functions for analysing metabolomics data
Analysis of the 'elements of metacommunity structure'
Meta-analysis of correlation coefficients
MetaDE: Microarray meta-analysis for differentially expressed gene detection
Meta-Analysis Package for R
Inference in Meta Analysis and Meta Regression
Likelihood inference in meta-analysis and meta-regression models
Meta-analysis for MicroArrays
Diagnostic and prognostic meta analysis (metamisc)
Meta-analysis of significance values
MetaPCA: Meta-analysis in the Dimension Reduction of Genomic data
MetaQC: Objective Quality Control and Inclusion/Exclusion Criteria for Genomic Meta-Analysis
Meta-analysis of RNA-seq data
Advanced statistical methods to model and adjust for bias in meta-analysis
Meta analysis for SNP-set (Sequence) Kernel Association Test
Fit and test metaregression models
Meta-analysis for Classification Data and Correction to Imperfect Reference
Tools for plotting meteograms
Meth27QC: sample quality analysis, and sample control analysis
Functions for analysis of agreement in method comparison studies
Visualize the methylation patterns
Evaluation metrics for machine learning
Support for metrological applications
Pharmacometric tools for data preparation, modeling, simulation, and reporting
Analysis of Multivariate Event Times
GUI tool for estimating sample sizes for metabolomic experiments
Statistical metabolomics tools
A Fixed Memeory Moving Expanding Window Average
Multi-table ExPosition
Mitigated Fraction

MFDA
MFHD
mFilter
mfp
MFSAS
mfx
mgcv
MGLM
mgpd
mgraph
mGSZ
MHadaptive
mhsmm
mht
mhurdle
mi
mice
miceadds
micEcon
micEconAids
micEconCES
micEconSNQP
MiClip
microbenchmark
MicroDatosEs
micromap
micromapST
MicroStrategyR
MicSim
midasr
MIfuns
MigClim
migest
migration.indices
migui
MIICD
MILC
mime
MImix
MindOnStats
minerva
Miney
miniGUI
minimax
minpack.lm
minPtest

Model Based Functional Data Analysis

Multivariate Functional Halfspace Depth
Miscellaneous time series filters
Multivariable Fractional Polynomials
Creation and Evaluation of Multilevel Fixed and Sequential Sampling Plans
Marginal Effects, Odds Ratios and Incidence Rate Ratios for GLMs
Mixed GAM Computation Vehicle with GCV/AIC/REML smoothness estimation
Multivariate Response Generalized Linear Models
mgpd: Functions for multivariate generalized Pareto distribution (MGPD of Type II)
Graphing map attributes and non-map variables in R
Gene set analysis based on GSZ-scoring function and asymptotic p-value
General Markov Chain Monte Carlo for Bayesian Inference using adaptive Metropolis-Hastings
sampling
Parameter estimation and prediction for hidden Markov and semi-Markov models for data with multiple
observation sequences
Multiple Hypotheses Testing For Variable Selection
Multiple hurdle Tobit models
Missing Data Imputation and Model Checking
Multivariate Imputation by Chained Equations
Some additional multiple imputation functions, especially for mice
Microeconomic Analysis and Modelling
Demand Analysis with the Almost Ideal Demand System (AIDS)
Analysis with the Constant Elasticity of Substitution (CES) function
Symmetric Normalized Quadratic Profit Function
A Model-based Approach to Identify Binding Sites in CLIP-Seq Data
Sub microsecond accurate timing functions
Utilities for Official Spanish Microdata
Linked Micromap Plots
Linked Micromap Plots for U. S. States
MicroStrategyR Package
Performing continuous-time microsimulation
Mixed Data Sampling Regression
Pharmacometric tools for data preparation, modeling, simulation, and reporting
Implementing dispersal into species distribution models
Useful R code for the Estimation of Migration
Migration indices
Graphical User Interface of the mi Package
Multiple Imputation for interval censored data regression
MIcrosimulation Lung Cancer (MILC) model
Map filenames to MIME types
Mixture summary method for multiple imputation
Data sets included in Utts and Heckard's Mind on Statistics
minerva: Maximal Information-Based Nonparametric Exploration R package for Variable Analysis
Implementation of the Well-Known Game to Clear Bombs from a Given Field (Matrix)
tktcl quick and simple function GUI
Minimax distribution family
R interface to the Levenberg-Marquardt nonlinear least-squares algorithm found in MINPACK, plus
support for bounds
Gene region-level testing procedure for SNP data, using the min P test resampling approach

minqa
minque
minxent
miP
MIPHENO
miRada
mirt
miRtest
misc3d
miscF
miscFuncs
MiscPsycho
miscset
miscTools
missForest
MissingDataGUI
missMDA
MissMech
MiST
mistat
mistral
MitISEM
mitools
mix
mixAK
mixcat
mixdist
mixedQF
mixer
mixexp
mixlm
mixlow
MixMAP
mixOmics
mixPHM
mixRasch
mixreg
mixsep
MixSim
mixsmsn
mixstock
mixtools
mixture
MixtureInf
mizer
mkin
MKLE

Derivative-free optimization algorithms by quadratic approximation

An R Package for Linear Mixed Model Analyses
Entropy Optimization Distributions
Multiple Imputation Plots
Mutant Identification through Probabilistic High throughput Enabled NOrmalization
MicroRNA Microarray Data Analysis
Multidimensional Item Response Theory
combined miRNA- and mRNA-testing
Miscellaneous 3D Plots
Miscellaneous Functions
Miscellaneous Useful Functions
Miscellaneous Psychometric Analyses
Miscellaneous Tools Set
Miscellaneous Tools and Utilities
Nonparametric Missing Value Imputation using Random Forest
A GUI for Missing Data Exploration
Handling missing values with/in multivariate data analysis (principal component methods)
Testing Homoscedasticity, Multivariate Normality, and Missing Completely at Random
Mixed effects Score Test for continuous outcomes
Data sets, functions and examples from the book:"Modern Industrial Statistics" by Kenett, Zacks and
Amberti
Methods in Structural Reliability
Mixture of Student t Distributions using Importance Sampling and Expectation Maximization
Tools for multiple imputation of missing data
Estimation/multiple Imputation for Mixed Categorical and Continuous Data
Multivariate normal mixture models and mixtures of generalized linear mixed models including model
based clustering
Mixed effects cumulative link and logistic regression models
Finite Mixture Distribution Models
Estimator with Qudratics Forms in Mixeds Models
Random graph clustering
Design and analysis of mixture experiments
Mixed model ANOVA and statistics for education
mixlow method for assessing drug synergism
Implements the MixMAP algorithm
Omics Data Integration Project
Mixtures of proportional hazard models
Mixture Rasch Models with JMLE
Functions to fit mixtures of regressions
Forensic Genetics DNA Mixture Separation
Simulating Data to Study Performance of Clustering Algorithms
Fitting finite mixture of scale mixture of skew-normal distributions
functions for mixed stock analysis
Tools for analyzing finite mixture models
Mixture Models for Clustering and Classification
Inference for Finite Mixture Models
Multi-species sIZE spectrum modelling in R
Routines for fitting kinetic models with one or more state variables to chemical degradation data
Maximum kernel likelihood estimation

MKmisc
mkssd
mlbench
MLCM
mlDNA
MLDS
mlearning
MLEcens
mlegp
MLEP
mleur
mlgt
mlica2
mlmmm
mlmRev
mlogit
mlogitBMA
MLPAstats
mlPhaser
mlr
MLRMPA
MM
mmand
mmap
mmcm
mmds
mme
mmeln
mmeta
MMIX
mmm
mmm2
MMMS
mmod
MMS
MMST
mnlogit
MNM
mnormt
MNP
mobForest
Mobilize
MOCCA
Modalclust
modeest
modehunt
modelcf

Miscellaneous Functions from M. Kohl

Efficient multi-level k-circulant supersaturated designs
Machine Learning Benchmark Problems
Maximum Likelihood Conjoint Measurement
Machine Learning-based Differential Network Analysis of Transcriptome Data
Maximum Likelihood Difference Scaling
Machine learning algorithms with unified interface and confusion matrices
Computation of the MLE for bivariate (interval) censored data
Maximum Likelihood Estimates of Gaussian Processes
Maximum likelihood estimate of penetrance parameters
Maximum likelihood unit root test
Multi-Locus Geno-Typing
Independent Component Analysis using Maximum Likelihood
ML estimation under multivariate linear mixed models with missing values
Examples from Multilevel Modelling Software Review
multinomial logit model
Bayesian Model Averaging for Multinomial Logit Models
MLPA analysis to detect gains and loses in genes
Multi-Locus Haplotype Phasing
mlr: Machine Learning in R
A package for Multilinear Regression Model Population Analysis
The multiplicative multinomial distribution
Mathematical morphology in any number of dimensions
Map Pages of Memory
Modified Maximum Contrast Method
Mixture Model Distance Sampling (mmds)
Multinomial Mixed Effects Models
MMELN : Estimation of multinormal mixture distribution
Multivariate Meta-Analysis
Model selection uncertainty and model mixing
an R package for analyzing multivariate longitudinal data with multivariate marginal models
Multivariate marginal models with shared regression parameters
Multi-Marker Molecular Signature for Treatment-specific Subgroup Identification
Modern measures of population differentiation
Fixed effects Selection in Linear Mixed Models
DATASETS FROM MMST
Multinomial Logit Model
Multivariate Nonparametric Methods. An Approach Based on Spatial Signs and Ranks
The multivariate normal and t distributions
R Package for Fitting the Multinomial Probit Model
Model based Random Forest analysis
Mobilize plots and functions
Multi-objective optimization for collecting cluster alternatives
Hierarchical Modal Clustering
Mode Estimation
Multiscale Analysis for Density Functions
Modeling physical computer codes with functional outputs using clustering and dimensionality reduction

modelfree
ModelGood
ModelMap
modeltools
modiscloud
MODISTools
modTempEff
moduleColor
MOJOV
mokken
mombf
moments
Momocs
mondate
MonetDB.R
monitoR
monmlp
monomvn
MonoPoly
monreg
moonsun
mopsocd
morgenstemning
Morpho
morse
MorseGen
MortalitySmooth
mosaic
moult
move
movMF
mpa
MPCI
MPDiR
mph
MPINet
MplusAutomation
mpm
mpMap
mpmcorrelogram
mpmi
mpoly
Mposterior
MPSEM
mpt
MPTinR
MPV

Model-free estimation of a psychometric function

Validation of risk prediction models
Creates Random Forest and Stochastic Gradient Boosting Models, and applies them to GIS .img files to
build detailed prediction maps
Tools and Classes for Statistical Models
R tools for processing Level 2 Cloud Mask products from MODIS
MODIS Subsetting Tools
Modelling temperature effects using time series data
Basic module functions
Mojo Variants: Rare Variants analysis
Mokken Scale Analysis in R
Moment and Inverse Moment Bayes factors
Moments, cumulants, skewness, kurtosis and related tests
Shape Analysis of Outlines
Keep track of dates in terms of months
Connect MonetDB to R
Acoustic template detection in R
Monotone multi-layer perceptron neural network
Estimation for multivariate normal and Student-t data with monotone missingness
Functions to fit monotone polynomials
Nonparametric monotone regression
Basic astronomical calculations with R
MOPSOCD: Multi-objective Particle Swarm Optimization with Crowding Distance
Color schemes compatible with red-green color perception difficulties
Calculations and visualisations related to Geometric Morphometrics
MOdelling tools for Reproduction and Survival data in Ecotoxicology
Simple raw data generator based on user-specified summary statistics
Smoothing and forecasting Poisson counts with P-splines
Project MOSAIC (mosaic-web.org) statistics and mathematics teaching utilities
Models for Analysing Moult in Birds
Visualizing and analyzing animal track data
Mixtures of von Mises-Fisher Distributions
CoWords Method
Multivariate Process Capability Indices (MPCI)
Data sets and scripts for Modeling Psychophysical Data in R
Multiscale persistent homology
The package can implement the network-based metabolite pathway identification of pathways
Automating Mplus Model Estimation and Interpretation
Multivariate Projection Methods
Multi-parent RIL genetic analysis
Multivariate Partial Mantel Correlogram
Mixed-pair mutual information estimators
Symbolic computation and more with multivariate polynomials
Mposterior: R package for Robust and Scalable Bayes via a Median of Subset Posterior Measures
Modeling Phylogenetic Signals using Eigenvector Maps
Multinomial Processing Tree (MPT) Models
Analyze Multinomial Processing Tree Models
Data Sets from Montgomery, Peck and Vining's Book

mQTL
mra
mratios
MRCE
MRCV
mrdrc
mrds
mreg
mritc
mRm
MRMR
mRMRe
MRsurv
MRwarping
msap
msarc
MsatAllele
MSBVAR
mseapca
MSeasy
MSeasyTkGUI
mseq
MSG
msgl
msgpackR
msgps
msir
msm
msme
msos
MSQC
msr
msSurv
mstate
MSwM
MTS
mtsdi
MTurkR
MUCflights
MuFiCokriging
muhaz
multcomp
multcompView
MultEq
multgee
multibiplotGUI
multic

Metabolomic Quantitative Trait Locus Mapping

Analysis of Mark-Recapture data
Inferences for ratios of coefficients in the general linear model
Multivariate regression with covariance estimation
Methods for Analyzing Multiple Response Categorical Variables (MRCVs)
Model-robust concentration-response analysis
Mark-Recapture Distance Sampling (mrds)
Fits regression models when the outcome is partially missing
MRI tissue classification
An R package for conditional maximum likelihood estimation in mixed Rasch models
Multivariate Regression Models for Reserving
R package for parallelized mRMR ensemble feature selection
A multiplicative-regression model for relative survival
Multiresolution time warping for functional data
Statistical analysis for Methylation-sensitive Amplification Polymorphism data
Draws diagrams (mis)representing the results of mass spec experiments
Visualizes the scoring and binning of microsatellite fragment sizes
Markov-Switching, Bayesian, Vector Autoregression Models
Metabolite set enrichment analysis for factor loading in principal component analysis
Preprocessing of Gas Chromatography-Mass Spectrometry (GC-MS) data
MSeasy Tcl/Tk Graphical User Interface
Modeling non-uniformity in short-read rates in RNA-Seq data
Data and functions for the book Modern Statistical Graphics
High dimensional multiclass classification using sparse group lasso
A library to serialize or unserialize data in MessagePack format
Degrees of freedom of elastic net, adaptive lasso and generalized elastic net
Model-based Sliced Inverse Regression
Multi-state Markov and hidden Markov models in continuous time
Functions and Datasets for "Methods of Statistical Model Estimation"
Datasets and Functions used in Multivariate Statistics: Old School by John Marden
Multivariate Statistical Quality Control
Morse-Smale approximation, regression and visualization
Nonparametric Estimation for Multistate Models
Data preparation, estimation and prediction in multi-state models
Fitting Markov Switching Models
All-purpose toolkit for analyzing multivariate time series (MTS) and estimating multivariate volatility
models
Multivariate time series data imputation
Access to Amazon Mechanical Turk Requester API via R
Munich Franz-Josef-Strauss Airport Pattern Analysis
Multi-Fidelity Cokriging models
Hazard Function Estimation in Survival Analysis
Simultaneous Inference in General Parametric Models
Visualizations of Paired Comparisons
Multiple Equivalence Tests and Simultaneous Confidence Intervals
GEE Solver for Correlated Nominal or Ordinal Multinomial Responses
Multibiplot Analysis in R
Quantitative linkage analysis tools using the variance components approach

Multiclasstesting
MultiCNVDetect
multicon
multicool
multicore
multiDimBio
multigroup
MultiLCIRT
multilevel
multilevelPSA
multinbmod
MultinomialCI
multinomRob
MultiOrd
MultiPhen
multiPIM
multiplex
multipol
multisensi
MultiSV
multitable
multitaper
multivator
multiwayvcov
multxpert
muma
MuMIn
munfold
munsell
munsellinterpol
muRL
muscle
muStat
mutoss
mutossGUI
MVA
mvabund
MVB
mvbutils
mvc
mvctm
mvcwt
mvinfluence
mvmeta
mvMORPH
MVN
mvna

Performance of N-ary classification testing

Multiple Copy Number Variation Detection
Multivariate Constructs
Permutations of multisets in cool-lex order
A stub package to ease transition to 'parallel'
Multivariate Analysis and Visualization for Biological Data
methods for multigroup data analysis
Multidimensional latent class Item Response Theory models
Multilevel Functions
Multilevel Propensity Score Analysis
Regression analysis of overdispersed correlated count data
Simultaneous confidence intervals for multinomial proportions according to the method by Sison and
Glaz
Robust Estimation of Overdispersed Multinomial Regression Models
Generation of multivariate ordinal variates
MultiPhen, a package for the genetic association testing of multiple phenotypes
Variable Importance Analysis with Population Intervention Models
Analysis of Multiple Social Networks with Algebra
multivariate polynomials
Multivariate Sensitivity Analysis
MultiSV: A tool to identify Structural Variations in Multiple populations
Simultaneous manipulation of multiple arrays of data, with data.list objects
Multitaper spectral analysis tools
A multivariate emulator
Multi-way standard error clustering
Common Multiple Testing Procedures and Gatekeeping Procedures
Metabolomics Univariate and Multivariate Analysis
Multi-model inference
Metric Unfolding
Munsell colour system
Interpolation of Munsell renotation data to convert any hue and chroma values to CIE xyY, CIE XYZ,
sRGB, CIE Lab or CIE Luv
Mailmerge using R, LaTeX, and the Web
Multiple Sequence Alignment
Prentice Rank Sum Test and McNemar Test
Unified multiple testing procedures
A graphical user interface for the MuToss Project
An Introduction to Applied Multivariate Analysis with R
statistical methods for analysing multivariate abundance data
Mutivariate Bernoulli log-linear model
Workspace organization, code and documentation editing, package prep and editing, etc
Multi-View Clustering
Multivariate Variance Components Tests for Multilevel Data
Wavelet analysis of multiple time series
Influence Measures and Diagnostic Plots for Multivariate Linear Models
Multivariate and univariate meta-analysis and meta-regression
Multivariate Comparative Tools for Fitting Evolutionary Models to Morphometric Data
Multivariate Normality Tests
Nelson-Aalen estimator of the cumulative hazard in multistate models

mvnfast
mvngGrAd
mvnmle
mvnormtest
mvoutlier
mvpart
MVPARTwrap
MVpower
mvProbit
MVR
mvsf
mvShapiroTest
mvSLOUCH
mvtBinaryEP
mvtmeta
mvtnorm
mvtsplot
mwa
mxkssd
MXM
mycobacrvR
myepisodes
Myrrix
Myrrixjars
nacopula
NADA
nadiv
namespace
nanop
NanoStringNorm
NAPPA
nat
nat.utils
naturalsort
NbClust
NBDdirichlet
nbpMatching
NBPSeq
nCal
NCBI2R
ncbit
ncdf
ncdf.tools
ncdf4
ncdf4.helpers
nCDunnett
ncf

Fast multivariate normal methods

Software for moving grid adjustment in plant breeding field trials
ML estimation for multivariate normal data with missing values
Normality test for multivariate variables
Multivariate outlier detection based on robust methods
Multivariate partitioning
MVPARTwrap: Additional features for package mvpart
Give power for a given effect size using multivariate classification methods
Multivariate Probit Models
Mean-Variance Regularization
Shapiro-Francia Multivariate Normality Test
Generalized Shapiro-Wilk test for multivariate normality
MultiVariate Stochastic Linear Ornstein-Uhlenbeck models for phylogenetic Comparative hypotHeses
Generates Correlated Binary Data
Multivariate meta-analysis
Multivariate Normal and t Distributions
Multivariate Time Series Plot
MWA package for causal inference in spatiotemporal event data
Efficient mixed-level k-circulant supersaturated designs
Discovering multiple, statistically-equivalent signatures
Integrative immunoinformatics for Mycobacterial diseases in R platform
MyEpisodes RSS/API functions
Interface to Myrrix. Myrrix is a complete, real-time, scalable clustering and recommender system,
evolved from Apache Mahout
External jars required for package Myrrix
Nested Archimedean Copulas
Nondetects And Data Analysis for environmental data
Functions to construct (non)additive genetic relatedness matrices and facilitate animal model analyses
Provide namespace managment functions not (yet) present in base R
Tools for Nanoparticle Simulation and Calculation of PDF and Total Scattering Structure Function
Normalize NanoString miRNA and mRNA data
Performs the processing and normalisation of Nanostring miRNA and mRNA data
nat: NeuroAnatomy Toolbox for Analysis of 3D Image Data
File System Utility Functions for NeuroAnatomy Toolbox
Natural Ordering
NbClust package for determining the best number of clusters
NBD-Dirichlet model of consumer buying behavior for marketing research
functions for non-bipartite optimal matching
Negative Binomial Models for RNA-Sequencing Data
Nonlinear Calibration
NCBI2R-An R package to navigate and annotate genes and SNPs
retrieve and build NBCI taxonomic data
Interface to Unidata netCDF data files
Easier ncdf file handling
Interface to Unidata netCDF (version 4 or earlier) format data files
Helper functions for use with the ncdf4 package
Noncentral Dunnett's test distribution
spatial nonparametric covariance functions

ncg
NCmisc
ncvreg
ndl
ndtv
neariso
NeatMap
needy
NEff
negenes
neldermead
Nemenyi
nephro
NestedCohort
netClass
NetCluster
NetComp
NetData
NetIndices
netmeta
NetPreProc
nets
NetSim
netweavers
network
networkDynamic
networkDynamicData
networkreporting
networksis
networkTomography
neuralnet
neuroblastoma
neuroim
neuRosim
Newdistns
nFactors
ngram
ngramr
ngspatial
NHEMOtree
nhlscrapr
NHMMfdr
NHPoisson
nice
NightDay
Nippon

Computes the noncentral gamma function

Miscellaneous general purpose functions
Regularization paths for SCAD- and MCP-penalized regression models
Naive Discriminative Learning
Network Dynamic Temporal Visualizations
Near-Isotonic Regression
Non-clustered heatmap alternatives
needy
Calculating effective sizes based on known demographic parameters of a population
Estimating the number of essential genes in a genome
R port of the Scilab neldermead module
Implementation of the Nemenyi post-hoc test to find the groups of data that differ after a statistical test
of multiple comparisons, e.g. Friedman test. Reference: Japkowicz/Shah (2011), Evaluating Learning
Algorithms. Pages 255 ff
Biostatistics utilities for nephrology
Survival Analysis for Cohorts with Missing Covariate Information
netClass: An R Package for Network-Based Biomarker Discovery
Clustering for networks
Network Generation and Comparison
Network Data for McFarland's SNA R labs
Estimating network indices, including trophic structure of foodwebs in R
Network meta-analysis with R
NetPreProc: Network Pre-Processing and normalization
Network Estimation for Time Series
A Social Networks Simulation Tool in R
NetWeAvers: Weighted Averages for Networks
Classes for Relational Data
Dynamic Extensions for Network Objects
dynamic network datasets
Tools for using network reporting estimators
Simulate bipartite graphs with fixed marginals through sequential importance sampling
Tools for network tomography
Training of neural networks
Neuroblastoma copy number profiles
neuroim: R software for reading, writing and representing brain imaging data
Functions to generate fMRI data including activated data, noise data and resting state data
Computes pdf, cdf, quantile and random numbers for 19 general families of distributions
Parallel Analysis and Non Graphical Solutions to the Cattell Scree Test
An n-gram Babbler
Retrieve and plot Google n-gram data
Classes for Spatial Data
Non-hierarchical evolutionary multi-objective tree learner to perform cost-sensitive classification
Compiling the NHL Real Time Scoring System Database for easy use in R
Compute FDR under dependence using NHMM
Modelling and validation of non homogeneous Poisson processes
Get or Set UNIX Niceness
Night and Day Boundary Plot Funtion
Japanese utility functions and data

NISTnls
nlADG
nleqslv
nlme
nlmeODE
nlmeU
nlmrt
nloptr
NLP
NLPutils
nlreg
NLRoot
nlrwr
nls2
nlsMicrobio
nlsmsn
nlstools
NlsyLinks
nlt
nlts
nmcdr
NMF
NMFN
NMOF
NMRS
nnclust
nnet
nnls
nodeHarvest
noia
NominalLogisticBiplot
noncensus
nonlinearTseries
nonparaeff
NonpModelCheck
nonrandom
nontarget
nopp
nor1mix
nordklimdata1
norm
NormalGamma
NormalLaplace
normalp
NormPsy
NORMT3
normtest

Nonlinear least squares examples from NIST

Regression in the Normal Linear ADG Model
Solve systems of non linear equations
Linear and Nonlinear Mixed Effects Models
Non-linear mixed-effects modelling in nlme using differential equations
Datasets and utility functions enhancing functionality of nlme package
Functions for nonlinear least squares solutions
R interface to NLopt
Natural Language Processing Infrastructure
Natural Language Processing Utilities
Higher Order Inference for Nonlinear Heteroscedastic Models
searching for the root of equation
Nonlinear regression with R
Non-linear regression with brute force
Nonlinear regression in predictive microbiology
Fitting nonlinear models with scale mixture of skew-normal distributions
Tools for nonlinear regression diagnostics
Utilities and kinship information for behavior genetics and developmental research using the NLSY
A nondecimated lifting transform for signal denoising
(non)linear time series analysis
Non-parametric Multiple Change-points Detection
Algorithms and framework for Nonnegative Matrix Factorization (NMF)
Non-negative Matrix Factorization
Numerical Methods and Optimization in Finance
NMR Spectroscopy
Nearest-neighbour tools for clustering
Feed-forward Neural Networks and Multinomial Log-Linear Models
The Lawson-Hanson algorithm for non-negative least squares (NNLS)
Node Harvest for regression and classification
Implementation of the Natural and Orthogonal InterAction (NOIA) model
Biplot representations of categorical data
U.S. Census Regional and Demographic Data
R package for nonlinear time series analysis
Nonparametric Methods for Measuring Efficiency and Productivity
Model Checking and Variable Selection in Nonparametric Regression
Stratification and matching by the propensity score
Detecting, combining and filtering isotope, adduct and homologue series relations in high-resolution
mass spectrometry (HRMS) data
Nash Optimal Party Positions
Normal (1-d) Mixture Models (S3 Classes and Methods)
Dataset for climate analysis with data from the Nordic region
Analysis of multivariate normal datasets with missing values
Normal-gamma convolution model
The Normal Laplace Distribution
Package for exponential power distributions (EPD)
Normalisation of psychometric tests
Evaluates complex erf, erfc, Faddeeva, and density of sum of Gaussian and Student's t
Tests for Normality

normwhn.test
nortest
nose
notifyR
noweb
Nozzle.R1
np
nparcomp
nparLD
npbr
NPCD
NPCirc
npcp
npde
NPHMC
nplplot
nplr
NPMLEcmprsk
npmlreg
NPMPM
npmv
NPMVCP
nppbib
npRmpi
NPS
NPsimex
npsp
npst
NRAIA
nricens
NSA
NScluster
nsga2R
NSM3
nsprcomp
nsRFA
nullabor
numbers
numDeriv
numOSL
nutshell
nutshell.audioscrobbler
nutshell.bbdb
nws
OAIHarvester
Oarray
objectProperties

Normality and White Noise Testing

Tests for Normality
nose Package for R
Send push notifications to your smartphone via pushover.net (ACCOUNT REQUIRED!)
Noweb system for R
Nozzle Reports
Nonparametric kernel smoothing methods for mixed data types
Perform multiple comparisons and compute simultaneous confidence intervals for the nonparametric
relative contrast effects
Nonparametric Analysis of Longitudinal Data in Factorial Experiments
Nonparametric boundary regression
Nonparametric Methods for Cognitive Diagnosis
Nonparametric Circular Methods
Some nonparametric tests for change-point detection in (multivariate) observations
Normalised prediction distribution errors for nonlinear mixed-effect models
Sample Size Calculation for the Proportional Hazards Mixture Cure Model
Plotting linkage and association results
N-Parameter Logistic Regression
Non-parametric Maximum-Likelihood Estimation for Competing-Risks Data
Nonparametric maximum likelihood estimation for random effect models
tertiary probabilistic model in predictive microbiology for use in food manufacture
Nonparametric Comparison of Multivariate Samples
Nonparametric Multivariate Change Point Model
Nonparametric Partially-Balanced Incomplete Block Design Analysis
Parallel nonparametric kernel smoothing methods for mixed data types
Convenience functions and tests for working with the Net Promoter Score (NPS)
Nonparametric Smoothing for contaminated data using Simulation-Extrapolation
Nonparametric spatial (geo)statistics
Generalization of Hewitt's Seasonality Test
Data sets from "Nonlinear Regression Analysis and Its Applications"
NRI for risk prediction models with time to event and binary response data
Post-normalization of total copy numbers
Simulation and Estimation of the Neyman-Scott Type Spatial Cluster Models
Elitist Non-dominated Sorting Genetic Algorithm based on R
An R package to accompany Hollander, Wolfe, and Chicken - Nonparametric Statistical Methods, Third
Edition
Non-Negative Sparse PCA
Non-supervised Regional Frequency Analysis
Tools for graphical inference
Number-theoretic Functions
Accurate Numerical Derivatives
Numeric routines for optically stimulated luminescence dating
Data for "R in a Nutshell"
Audioscrobbler data for "R in a Nutshell"
Baseball Database for "R in a Nutshell"
R functions for NetWorkSpaces and Sleigh
Harvest Metadata Using OAI-PMH v2.0
Arrays with arbitrary offsets
A factory of self-describing properties

objectSignals
obliclus
oblique.tree
obliqueRF
obs.agree
obsSens
oc
occ
oce
ocean
OceanView
ocedata
ODB
odfWeave
odfWeave.survey
ODMconverter
oem
Ohmage
OIdata
OIsurv
OjaNP
okmesonet
OligoSpecificitySystem
OLScurve
omd
OmicKriging
oncomodel
Oncotree
OneHandClapping
onemap
OneTwoSamples
onion
OOmisc
OpasnetUtils
OPDOE
OPE
opefimor
openair
OpenCL
opencpu
openintro
OpenMPController
openNLP
openNLPdata
OpenRepGrid
OpenStreetMap
openxlsx

objectSignals
Cluster-based factor rotation
Oblique Trees for Classification Data
Oblique Random Forests from Recursive Linear Model Splits
An R package to assess agreement between observers
Sensitivity analysis for Observational studies
OC Roll Call Analysis Software
Estimates PET neuroreceptor occupancies
Analysis of Oceanographic data
Biophysical Oceanography Tools
Visualisation of Oceanographic Data and Model Output
Oceanographic datasets for Oce
Open Document Databases (.odb) management
Sweave processing of Open Document Format (ODF) files
Support for odfWeave on the survey package
tools to convert ODM files
Orthogonalizing Expectation maximization
R Client for Mobilize/Andwellness server
Data sets and supplements (OpenIntro)
Survival analysis supplement to OpenIntro guide
Multivariate Methods Based on the Oja Median and Related Concepts
Retrieve Oklahoma Mesonet climatological data
Oligo Specificity System
OLS growth curve trajectories
filter the molecular descriptors for QSAR
OmicKriging for Phenotypic Prediction
Maximum likelihood tree models for oncogenesis
Estimating oncogenetic trees
Prediction of condition-specific transcription factor interactions
Software for constructing genetic maps in experimental crosses: full-sib, RILs, F2 and backcrosses
Deal with one and two (normal) samples
octonions and quaternions
Ozgur-Ozlem Miscellaneous
Utility functions for dealing with data in Opasnet (www.opasnet.org) environment
OPtimal Design Of Experiments
Outer-product emulator
Option Pricing and Estimation of Financial Models in R
Tools for the analysis of air pollution data
Interface allowing R to use OpenCL
The OpenCPU system for embedded scientific computing and reproducible research
OpenIntro data sets and supplemental functions
Control number of OpenMP threads dynamically
Apache OpenNLP Tools Interface
Apache OpenNLP Jars and Basic English Language Models
Tools to analyse repertory grid data
Access to open street map raster images
.xlsx reading, writing and editing

operator.tools
operators
OPI
opm
opmdata
oposSOM
ops
optAUC
optBiomarker
optextras
OptHedging
OptimalCutpoints
optimbase
optimsimplex
optimx
OptInterim
optiRum
optmatch
optparse
optpart
optR
ora
orca
ORCI
orclus
ORCME
orcutt
ordBTL
orddom
ORDER2PARENT
orderbook
OrdFacReg
ordinal
OrdinalLogisticBiplot
OrdMonReg
OrdNor
ordPens
OrgMassSpecR
ORIClust
orientlib
orloca
orloca.es
ORMDR
oro.dicom
oro.nifti
oro.pet

Utilities for working with R's operators

Additional binary operators for the R language
Open Perimetry Interface
Analysing Phenotype Microarray and Growth Curve Data
Example data for analysing OmniLog(R) Phenotype Microarray data
Package for analysis and visualization of metagenes
Optimal Power Space Transformation
Optimal Combinations of Diagnostic Tests Based on AUC
Estimation of optimal number of biomarkers for two-group microarray based classifications at a given
error tolerance level for various classification rules
A set of tools to support optimization methods (function minimization with at most bounds and masks)
Estimation of value and hedging strategy of call and put options
Computing optimal cutpoints in diagnostic tests
R port of the Scilab optimbase module
R port of the Scilab optimsimplex module
A Replacement and Extension of the optim() Function
Optimal Two and Three Stage Designs for Single-Arm and Two-Arm Randomized Controlled Trials with
a Long-Term Binary Endpoint
Miscellaneous functions for finance / credit risk analysts
Functions for optimal matching
Command line option parser
Optimal partitioning of similarity relations
Optimization Toolbox for solving linear systems
Convenient Tools for Working with Oracle Databases
Orca: Counting graphlet orbits in sparse graphs
Several confidence intervals for the odds ratio
ORCLUS subspace clustering
Order Restricted Clustering for Microarray Experiments
Estimate procedure in case of first order autocorrelation
Modelling comparison data with ordinal response
Ordinal Dominance Statistics
Estimate parent distributions with data of several order statistics
Orderbook visualization/Charting software
Least squares, logistic, and Cox-regression with ordered predictors
Regression Models for Ordinal Data
Biplot representations of ordinal variables
Compute least squares estimates of one bounded or two ordered isotonic regression curves
Concurrent generation of ordinal and normal data with given correlation matrix and marginal
distributions
Selection and/or Smoothing of Ordinal Predictors
Organic Mass Spectrometry
Order-restricted Information Criterion-based Clustering Algorithm
Support for orientation data
The package deals with Operations Research LOCational Analysis models
Spanish version of orloca package
ORMDR
Rigorous - DICOM Input / Output
Rigorous - NIfTI+ANALYZE+AFNI Input / Output
Rigorous - Positron Emission Tomography

orQA
orsk
orthogonalsplinebasis
orthopolynom
osDesign
osmar
ouch
outbreaker
OutbreakTools
OutlierDC
OutlierDM
outliers
OUwie
overlap
oz
p2distance
p3state.msm
pa
pacbpred
pack
packClassic
packdep
packHV
packS4
pacose
paf
PAGI
PAGWAS
pairedCI
PairedData
pairheatmap
PairViz
pairwise
pairwiseCI
palaeoSig
paleobioDB
paleofire
paleoMAS
paleotree
paleoTS
palinsol
PamGeneMixed
pamm
pamr
pan
pander

Order Restricted Assessment Of Microarray Titration Experiments

Converting Odds Ratio to Relative Risk in Cohort Studies with Partial Data Information
Orthogonal Bspline Basis Functions
Collection of functions for orthogonal and orthonormal polynomials
Design and analysis of observational studies
OpenStreetMap and R
Ornstein-Uhlenbeck models for phylogenetic comparative hypotheses
Bayesian reconstruction of disease outbreaks by combining epidemiologic and genomic data
basic tools for the analysis of disease outbreaks
Outlier Detection using quantile regression for Censored Data
Outlier detection for replicated high-throughput data
Tests for outliers
Analysis of evolutionary rates in an OU framework
Estimates of coefficient of overlapping for animal activity patterns
Plot the Australian coastline and states
Welfare's Synthetic Indicator
Analyzing survival data
Performance Attribution for Equity Portfolios
PAC-Bayesian Estimation and Prediction in Sparse Additive Models
Convert values to/from raw vectors
Toy example of Pack Classic
Mapping dependencies among R packages
A few useful functions for statisticians
Toy example of S4 package
iPACOSE, PACOSE and other methods for covariance selection
Attributable Fraction Function for Censored Survival Data
The package can identify the dysregulated KEGG pathways based on global influence from the internal
effect of pathways and crosstalk between pathways
Pathway analysis methods for genomewide association data
Confidence intervals for the ratio of locations and for the ratio of scales of two paired samples
Paired Data Analysis
A tool for comparing heatmaps
Visualization using Eulerian tours and Hamiltonian decompositions
Rasch Model Parameters by Pairwise Algorithm
Confidence intervals for two sample comparisons
Significance tests for palaeoenvironmental reconstructions
paleobioDB: a package for downloading, visualizing and processing data from Paleobiology Database
paleofire: an R package to analyse sedimentary charcoal records from the Global Charcoal Database to
reconstruct past biomass burning
Paleoecological Analysis
Paleontological and Phylogenetic Analyses of Evolution
Analyze paleontological time-series
Insolation for palaeoclimate studies
Preprocessing and Modeling Kinase Activity Profiles in PamChip Data
Power analysis for random effects in mixed models
Pam: prediction analysis for microarrays
Multiple imputation for multivariate panel or clustered data
An R pandoc writer

panelAR
Paneldata
papeR
parallelize.dynamic
parallelMap
parallelMCMCcombine
ParamHelpers
paramlink
paran
parboost
parcor
ParDNAcopy
ParentOffspring
ParetoPosStable
parfm
parfossil
parma
parmigene
parspatstat
partDSA
partialOR
partitionMap
partitionMetric
partitions
partsm
party
partykit
parviol
PAS
pass
pastecs
pastis
PASWR
patchDVI
patchPlot
pathClass
pathdiagram
pathmox
PatternClass
pavo
pawacc
PAWL
pbapply
pbatR
PBC
PBD

Estimation of Linear AR(1) Panel Data Models with Cross-Sectional Heteroskedasticity and/or
Correlation
Linear models for panel data
A toolbox for writing Sweave or other LaTeX-based papers and reports
Automate parallelization of function calls by means of dynamic code analysis
Unified interface to some popular parallelization back-ends for interactive usage and package
development
Methods for combining independent subset Markov chain Monte Carlo (MCMC) posterior samples to
estimate a posterior density given the full data set
Helpers for parameters in black-box optimization, tuning and machine learning
Parametric linkage analysis in R
Horn's Test of Principal Components/Factors
Distributed Model-Based Boosting
Regularized estimation of partial correlation matrices
parallel implementation of the "segment" function of package "DNAcopy"
Conduct the Parent-Offspring Test Using Monomorphic SNP Markers
Computing, fitting and validating the Pareto Positive Stable distribution
Parametric Frailty Models
Parallelized functions for palaeoecological and palaeogeographical analysis
Portfolio Allocation and Risk Management Applications
Parallel Mutual Information estimation for Gene Network reconstruction
Parallel spatial statistics
Partitioning using deletion, substitution, and addition moves
Partial Odds Ratio
Partition Maps
Compute a distance metric between two partitions of a set
Additive partitions of integers
Periodic Autoregressive Time Series Models
A Laboratory for Recursive Partytioning
A Toolkit for Recursive Partytioning
Parviol
Polygenic Analysis System (PAS)
Prediction and Stability Selection of Tuning Parameters
Package for Analysis of Space-Time Ecological Series
Phylogenetic Assembly with Soft Taxonomic Inferences
PROBABILITY and STATISTICS WITH R
Package to patch .dvi files
Scatterplots of image patches
Classification using biological pathways as prior knowledge
Basic functions for drawing path diagrams
Pathmox Approach of Segmentation Trees in Partial Least Squares Path Modeling
Class-focused pattern metric comparisons using simulation
Perceptual analysis, visualization and organization of spectral color data in R
Physical activity with accelerometers
Implementation of the PAWL algorithm
Adding Progress Bar to '*apply' Functions
P2BAT
Product of Bivariate Copulas (PBC)
Protracted birth-death model of diversification

pbdBASE
pbdDEMO
pbdDMAT
pbdMPI
pbdNCDF4
pbdPROF
pbdSLAP
PBImisc
pbivnorm
pbkrtest
pbo
pbs
PBSadmb
PBSddesolve
PBSmapping
PBSmodelling
pca3d
pcaL1
pcalg
PCAmixdata
pcaPA
pcaPP
PCDSpline
pcenum
pcg
PCGSE
PCICt
pcIRT
PCIT
pcnetmeta
PCovR
PCPS
pcrcoal
PCS
pcse
pdc
pdfCluster
pdfetch
pdist
pdmod
PDSCE
peacots
Peaks
pear
pearson7
PearsonDS
PearsonICA

Programming with Big Data Base Wrappers for Distributed Matrices

Programming with Big Data Demonstrations of pbd Packages
Programming with Big Data Distributed Matrix Methods
Programming with Big Data Interface to MPI
Programming with Big Data Interface to Parallel Unidata NetCDF4 Format Data Files
Programming with Big Data MPI Profiling Tools
Programming with Big Data Scalable Linear Algebra Packages
A set of datasets used in my classes or in the book ,,Modele liniowe i mieszane w R, wraz z przykladami
w analizie danych
Vectorized Bivariate Normal CDF
Parametric bootstrap and Kenward Roger based methods for mixed model comparison
Probability of Backtest Overfitting
Periodic B Splines
ADMB for R Using Scripts or GUI
Solver for Delay Differential Equations
Mapping Fisheries Data and Spatial Analysis Tools
GUI Tools Made Easy: Interact with Models, Explore Data, Give Dynamic Presentations
Three dimensional PCA plots
Three L1-Norm PCA Methods
Methods for graphical models and causal inference
Multivariate analysis for a mixture of quantitative and qualitative data
Parallel Analysis for ordinal and numeric data using polychoric and Pearson correlations with S3 classes
Robust PCA by Projection Pursuit
Semiparametric regression analysis of panel count data using monotone splines
Permutations and Combinations Enumeration
Preconditioned Conjugate Gradient Algorithm for solving Ax=b
Principal Component Gene Set Enrichment
Implementation of POSIXct work-alike for 365 and 360 day calendars
IRT models for polytomous and continuous item responses
PCIT algorithm - Partial Correlation Coefficient with Information Theory
Methods for patient-centered network meta-analysis
Principal Covariates Regression
PCPS - Principal Coordinates of Phylogenetic Structure
A package implementing the coalescent approach to PCR simulation developed by Weiss and von
Haeseler (NAR, 1997)
Calculate the probability of correct selection (PCS)
Panel-Corrected Standard Error Estimation in R
Permutation Distribution Clustering
Cluster analysis via nonparametric density estimation
Fetch economic and financial time series data from public sources
Partitioned Distance Function
Proximal/distal modeling framework for Pavlovian conditioning phenomena
Positive definite sparse covariance estimators
Periodogram Peaks in Correlated Time Series
Peaks
Package for Periodic Autoregression Analysis
Maximum Likelihood Inference for the Pearson VII Distribution with Shape Parameter 3/2
Pearson Distribution System
Independent component analysis using score functions from the Pearson system

pec
pedantics
PedCNV
pedgene
pedigree
pedigreemm
pegas
PEIP
PEMM
penalized
penalizedLDA
penalizedSVM
pencopula
pendensity
penDvine
PenLNM
penMSM
pensim
peperr
peplib
peptider
Peptides
pequod
perARMA
PerfMeas
PerformanceAnalytics
performanceEstimation
perm
PermAlgo
PerMallows
permGPU
permtest
permute
PERregress
perry
persiandictionary
perturb
pesticides
PET
PF
pfa
pgam
pgirmess
pglm
pGLS
PGM2
pgnorm

Prediction Error Curves for Survival Models

Functions to facilitate power and sensitivity analyses for genetic studies of natural populations
An implementation for association analysis with CNV data
Gene-level statistics for Pedigree Data
Pedigree functions
Pedigree-based mixed-effects models
Population and Evolutionary Genetics Analysis System
Functions for Aster Book on Inverse Theory
A Penalized EM algorithm incorporating missing-data mechanism
L1 (lasso and fused lasso) and L2 (ridge) penalized estimation in GLMs and in the Cox model
Penalized classification using Fisher's linear discriminant
Feature Selection SVM using penalty functions
Flexible Copula Density Estimation with Penalized Hierarchical B-Splines
Density Estimation with a Penalized Mixture Approach
Flexible Pair-Copula Estimation in D-vines using Bivariate Penalized Splines
Group l1 penalized logistic normal multinomial (LNM) regression model
Estimating regularized multistate models using L1 penalties
Simulation of high-dimensional data and parallelized repeated penalized regression
Parallelised Estimation of Prediction Error
Peptide Library Analysis Methods
Evaluation of diversity in nucleotide libraries
Calculate indices and theoretical physicochemical properties of peptides and protein sequences
Moderated regression package
Package for Periodic Time Series Analysis
PerfMeas: Performance Measures for ranking and classification tasks
Econometric tools for performance and risk analysis
An infra-structure for performance estimation of predictive models
Exact or Asymptotic permutation tests
Permutational algorithm to simulate survival data
Permutations and Mallows distributions
permPGU: Using GPUs in Statistical Genomics
Permutation test to compare variability within and distance between two groups
Functions for generating restricted permutations of data
Regression Functions and Datasets
Resampling-based prediction error estimation for regression models
English to Persian dictionary
Tools for evaluating collinearity
Analysis of single serving and composite pesticide residue measurements
Simulation and Reconstruction of PET Images
Prevented fraction
Estimates False Discovery Proportion Under Arbitrary Covariance Dependence
Poisson-Gamma Additive Models
Data analysis in ecology
panel generalized linear model
Generalized Least Square in comparative Phylogenetics
Recursive method for construction of nested resolvable designs and uniform designs associated
The p-generalized normal distribution

pgs
phalen
phangorn
PharmPow
phaseR
PhaseType
phcfM
pheatmap
phenability
phenex
phenmod
pheno
pheno2geno
phenology
PHeval
phia
phmm
phom
phonR
phonTools
phreeqc
phtt
PhViD
phyclust
phyext
phylobase
phyloclim
phyloland
phylolm
phylosim
phylotools
phyloTop
phyreg
PhysicalActivity
phytools
pi0
picante
PIGE
PIGShift
PIN
pipeR
PIPS
pitchRx
PivotalR
pixmap
PK
PKfit

Precision of Geometric Sampling

Phalen Algorithms and Functions
Phylogenetic analysis in R
Pharmacometric Power calculations for mixed study designs
Phase Plane Analysis of One and Two Dimensional ODE Systems
Inference for Phase-type Distributions
Modelling anthropogenic deforestation
Pretty Heatmaps
Nonparametric Stability Analysis
Auxiliary functions for phenological data analysis
Auxiliary functions for phenological data processing, modelling and result handling
Auxiliary functions for phenological data analysis
Pheno2Geno - Generating genetic markers and maps from molecular phenotypes
Tools to manage a parametric function that describes phenology
Evaluation of the proportional hazards assumption with a standardized score process
Post-Hoc Interaction Analysis
Proportional Hazards Mixed-effects Model (PHMM)
Persistent Homology in R
R tools for phoneticians and phonologists
Functions for phonetics in R
R interface to the phreeqc geochemical modeling program
Panel Data Analysis with Heterogeneous Time Trends
PhViD: an R package for PharmacoVigilance signal Detection
Phylogenetic Clustering (Phyloclustering)
An extension of some of the classes in phylobase. Tree objects now support subnodes on branches
Base package for phylogenetic structures and comparative data
Integrating Phylogenetics and Climatic Niche Modeling
Modelling Competitive Exclusion and Limited Dispersal in a Statistical Phylogeographic Framework
Phylogenetic Linear Regression
R package for simulating biological sequence evolution
Phylogenetic tools for Eco-phylogenetics
Phylogenetic Tree Topological Properties Evaluator
Implements the Phylogenetic Regression of Grafen (1989)
Process Physical Activity Accelerometer Data
Phylogenetic Tools for comparative biology (and other things)
Estimating the proportion of true null hypotheses for FDR
R tools for integrating phylogenies and ecology
Self contained gene set analysis for gene- and pathway-environment interaction analysis
Polygenic Inverse Gamma rate Shifts
Estimates the parameters of a trading-tree model for the computation of the probability of informed
trading
Specialized, high-performance pipeline operators
Predicted Interval Plots
Tools for Harnessing MLBAM Gameday data and Visualizing PITCHf/x
R front-end to PostgreSQL and Pivotal (Greenplum) database, wrapper for MADlib
Bitmap Images (Pixel Maps)
Basic Non-Compartmental Pharmacokinetics
A Data Analysis Tool for Pharmacokinetics

pkgKitten
pkgmaker
PKgraph
pkgutils
PKI
PKmodelFinder
PKPDmodels
PKreport
pks
PKtools
plan
planar
planor
PlayerRatings
playitbyr
playwith
plfm
plgp
plink
PLIS
plm
plmDE
plmm
pln
plot2groups
plot3D
plot3Drgl
plotGoogleMaps
plotKML
plotMCMC
plotmo
plotpc
PlotRegionHighlighter
plotrix
plotSEMM
plRasch
PLRModels
pls
plsdepot
plsdof
plsgenomics
plspm
plsRbeta
plsRcox
plsRglm
plugdensity
plumbr

Create simple packages which do not upset R CMD check

Package development utilities
Model diagnostics for population pharmacokinetic models
pkgutils Utilities for creating R packages
Public Key Infrastucture for R based on the X.509 standard
Software for Pharmacokinetic model
Pharmacokinetic/pharmacodynamic models
A reporting pipeline for checking population pharmacokinetic model assumption
Probabilistic Knowledge Structures
unified computational interfaces for pop PK
Tools for project planning
Multilayer optics
Generation of regular factorial designs
Dynamic Updating Methods For Player Ratings Estimation
Representing and exploring data through sound
A GUI for interactive plots using GTK+
Probabilistic latent feature analysis of two-way two-mode frequency data
Particle Learning of Gaussian Processes
IRT Separate Calibration Linking Methods
Multiplicity control using Pooled LIS statistic
Linear Models for Panel Data
Additive partially linear models for differential gene expression analysis
Partially Linear Mixed Effects Model
Polytomous logit-normit (graded logistic) model estimation
Plot scatter points for two groups of values
Plotting multi-dimensional data
Plotting multi-dimensional data - using rgl
Plot spatial or spatio-temporal data over Google Maps
Visualization of spatial and spatio-temporal objects in Google Earth
MCMC Diagnostic Plots
Plot a model's response while varying the values of the predictors
Plot principal component histograms around a scatter plot
Creates an envelope that surrounds a set of points plotted in a two dimensional space
Various plotting functions
Graphing nonlinear latent variable interactions in SEMM
Log Linear by Linear Association models and Rasch family models by pseudolikelihood estimation
Statistical inference in partial linear regression models
Partial Least Squares and Principal Component regression
Partial Least Squares (PLS) Data Analysis Methods
Degrees of Freedom and Statistical Inference for Partial Least Squares Regression
PLS analyses for genomics
Tools for Partial Least Squares Path Modeling (PLS-PM)
Partial least squares Regression for beta regression models
Partial least squares Regression for Cox models and related techniques
Partial least squares Regression for generalized linear models
Plug-in Kernel Density Estimation
Mutable and dynamic data models

plus
plusser
plyr
PMA
pmcgd
pmclust
PMCMR
pmg
pmlr
pmml
pmmlTransformations
pmr
png
pnmtrem
pnn
pocrm
POET
poibin
PoiClaClu
poilog
PoisNor
poisson.glm.mix
PoissonSeq
poistweedie
poLCA
pollstR
polspline
polyaAeppli
polyapost
polyclip
polycor
polyCub
polynom
PolynomF
PolyPatEx
polysat
polySegratio
polySegratioMM
polytomous
polywog
pom
Pomic
PoMoS
pomp
pooh
popbio
popdemo

Penalized Linear Unbiased Selection

A Google+ Interface for R
Tools for splitting, applying and combining data
Penalized Multivariate Analysis
pmcgd
Parallel Model-Based Clustering
Calculate Pairwise Multiple Comparisons of Mean Rank Sums
Poor Man's GUI
Penalized Multinomial Logistic Regression
Generate PMML for various models
Transforms input data from a PMML perspective
Probability Models for Ranking Data
Read and write PNG images
Probit-Normal Marginalized Transition Random Effects Models
Probabilistic neural networks
Dose-finding in drug combination Phase I trials using the partial order continual reassessment method
(PO-CRM)
Principal Orthogonal ComplEment Thresholding (POET) method
The Poisson Binomial Distribution
Classification and clustering of sequencing data based on a Poisson model
Poisson lognormal and bivariate Poisson lognormal distribution
Simultaneous generation of multivariate data with Poisson and normal marginals
Fit high dimensional mixtures of Poisson GLMs
Significance analysis of sequencing data based on a Poisson log linear model
Poisson-Tweedie exponential family models
Polytomous variable Latent Class Analysis
R client for the Huffpost Pollster API
Polynomial spline routines
Implementation of the Polya-Aeppli distribution
Simulating from the Polya posterior
Polygon Clipping
Polychoric and Polyserial Correlations
Cubature over Polygonal Domains
A collection of functions to implement a class for univariate polynomial manipulations
Polynomials in R
Paternity exclusion in autopolyploid species
Tools for Polyploid Microsatellite Analysis
Simulate and test marker dosage for dominant markers in autopolyploids
Bayesian mixture models for marker dosage in autopolyploids
Polytomous logistic regression for fixed and mixed effects
Bootstrapped Basis Regression with Oracle Model Selection
POM - Patch Occupancy Models
Pomic
Polynomial (ordinary differential equation) Model Search
Statistical inference for partially observed Markov processes
Partial Orders and Relations
Construction and analysis of matrix population models
Provides Tools For Demographic Modelling Using Projection Matrices

PopED
popgen
PopGenKit
PopGenome
PopGenReport
popgraph
poppr
popRange
popReconstruct
popsom
portes
portfolio
portfolioSim
PortRisk
postCP
potts
PottsUtils
powell
PoweR
Power2Stage
powerAnalysis
powerGWASinteraction
poweRlaw
powerMediation
powerpkg
powerSurvEpi
PowerTOST
PP
ppcor
ppiPre
ppls
ppmlasso
pps
ppstat
PPtree
pqantimalarials
prabclus
pracma
PracTools
pragma
praktikum
predfinitepop
PredictABEL
PredictiveRegression
predictmeans

Population (and individual) optimal Experimental Design

Statistical and Population Genetics
Useful functions for (batch) file conversion and data resampling in microsatellite datasets
A swiss army knife for population genetic & genomic analysis
PopGen: A simple way to analyse and visualize population genetic data
This is an R package that constructs and manipulates population graphs
an R package for genetic analysis of populations with mixed reproduction
popRange: A spatially and temporally explicit forward genetic simulator
Reconstruct population counts, fertility, mortality and migration rates of human populations of the recent
past
Self-Organizing Maps With Population Based Convergence Criterion
Portmanteau Tests for Univariate and Multivariate Time Series Models
Analysing equity portfolios
Framework for simulating equity portfolio strategies
Portfolio Risk Analysis
A package to estimate posterior probabilities and perform model selection in change-point models using
constrained HMM
Markov Chain Monte Carlo for Potts Models
Utility Functions of the Potts Models
Powell's UObyQA algorithm
Computation of power and level tables for hypothesis tests
Power and Sample size distribution of 2-stage BE studies via simulations
Power analysis in experimental design
Power Calculations for Interactions for GWAS
Fitting heavy tailed distributions: the poweRlaw package
Power/Sample size calculation for mediation analysis, simple linear regression, logistic regression, or
longitudinal study
Power analyses for the affected sib pair and the TDT design
Power and sample size calculation for survival analysis of epidemiological studies
Power and Sample size based on two one-sided t-tests (TOST) for (bio)equivalence studies
Person Parameter estimation
Partial and Semi-partial (Part) correlation
Predict protein-protein interactions based on functional and topological similarities
Penalized Partial Least Squares
PPM-LASSO: Point process models with LASSO penalties
Functions for PPS sampling
Point Process Statistics
Projection pursuit classification tree
web tool for estimating under-five deaths caused by poor-quality antimalarials in sub-Saharan Africa
Functions for clustering of presence-absence, abundance and multilocus genetic data
Practical Numerical Math Functions
Tools for Designing and Weighting Survey Samples
Provides a pragma / directive / keyword syntax for R
Kvantitatiivsete meetodite praktikumi asjad / Functions used in the course "Quantitative methods in
behavioural sciences" (SHPH.00.004), University of Tartu
Predictive Inference on Totals and Averages of Finite Populations Segmented in Planned and
Unplanned Domains
Assessment of risk prediction models
Prediction Intervals for Three Basic Statistical Models
Calculate Predicted Means for Linear Models

predmixcor
prefmod
PReMiuM
PresenceAbsence
PResiduals
prettyGraphs
prettyR
prevalence
prevR
prim
primer
primerTree
princurve
prinsimp
PRISMA
PrivateLR
prLogistic
prob
ProbForecastGOP
probsvm
pROC
processdata
ProDenICA
prodlim
PROFANCY
profdpm
ProfessR
ProfileLikelihood
profileModel
profileR
profr
proftools
ProgGUIinR
prognosticROC
proj4
ProjectTemplate
propagate
PropCIs
PropClust
PropScrRand
prospectr
proteomicdesign
protiq
proto
protoclass
PROTOLIDAR

Classification rule based on Bayesian mixture models with feature selection bias corrected
Utilities to fit paired comparison models for preferences
Dirichlet Process Bayesian Clustering, Profile Regression
Presence-Absence Model Evaluation
Probability scale residuals and residual correlations
publication-quality graphics
Pretty descriptive stats
The prevalence package
Estimating regional trends of a prevalence from a DHS
Patient Rule Induction Method (PRIM)
Functions and data for A Primer of Ecology with R
primerTree
Fits a Principal Curve in Arbitrary Dimension
Finding and plotting simple basis vectors for multivariate data
Protocol Inspection and State Machine Analysis
Differentially private regularized logistic regression
Estimation of Prevalence Ratios using Logistic Models
Elementary Probability on Finite Sample Spaces
Probabilistic weather forecast using the GOP method
probsvm: Class probability estimation for Support Vector Machines
display and analyze ROC curves
Process Data
Product Density Estimation for ICA using tilted Gaussian density estimates
Product-limit estimation. Kaplan-Meier and Aalen-Johansson method for censored event history
(survival) analysis
The package can prioritize candidate disease metabolites based on global functional relationships
between metabolites in the context of metabolic pathways
Profile Dirichlet Process Mixtures
Grades Setting and Exam Maker
Profile Likelihood for a Parameter in Commonly Used Statistical Models
Tools for profiling inference functions for various model classes
Profile Analysis of Multivariate Data in R
An alternative display for profiling information
Profile Output Processing Tools for R
support package for "Programming Graphical User Interfaces in R"
Prognostic ROC curves for evaluating the predictive capacity of a binary test
A simple interface to the PROJ.4 cartographic projections library
Automates the creation of new statistical analysis projects
Propagation of Uncertainty
Various confidence interval methods for proportions
Propensity Clustering and Decomposition
Propensity score methods for assigning treatment in randomized trials
Miscellaneous functions for processing and sample selection of vis-NIR diffuse reflectance data
Optimization of a multi-stage proteomic study
Protein (identification and) quantification based on peptide evidence
Prototype object-based programming
Interpretable classification with prototypes
PRocess TOol LIdar DAta in R

protr
protViz
proxy
PSAboot
PSAgraphics
psbcGroup
PSCBS
pscl
psd
psData
pse
pseudo
psgp
pSI
psidR
PSM
PSMix
pso
pspearman
pspline
PST
PsumtSim
psy
psych
psychometric
psychomix
psychotools
psychotree
psyphy
psytabs
pt
PTAk
PTE
ptinpoly
PtProcess
ptw
PubBias
pubmed.mineR
PubMedWordcloud
pumilioR
PurBayes
pushoverr
PVAClone
pvar
pvclass
pvclust

Protein Sequence Descriptor Calculation and Similarity Computation with R

Visualizing and Analyzing Mass Spectrometry Related Data in Proteomics
Distance and Similarity Measures
Bootstrapping for Propensity Score Analysis
Propensity Score Analysis Graphics
Penalized semi-parametric Bayesian Cox (PSBC) models with shrinkage and grouping priors
Analysis of Parent-Specific DNA Copy Numbers
Political Science Computational Laboratory, Stanford University
Adaptive, sine-multitaper power spectral density estimation
A package to download regularly maintained political science data sets and make commonly used, but
infrequently updated variables based on this data
Parameter space exploration with Latin Hypercubes
Pseudo - observations
Projected Spatial Gaussian Process (psgp) methods
Specificity Index Statistic
Build panel data sets from PSID raw data
Non-Linear Mixed-Effects modelling using Stochastic Differential Equations
Population structure inference using mixture model
Particle Swarm Optimization
Spearman's rank correlation test
Penalized Smoothing Splines
Probabilistic Suffix Trees and Variable Length Markov Chains
Simulations of grouped responses relative to baseline
Various procedures used in psychometry
Procedures for Psychological, Psychometric, and Personality Research
Applied Psychometric Theory
Psychometric Mixture Models
Infrastructure for Psychometric Modeling
Recursive Partitioning Based on Psychometric Models
Functions for analyzing psychophysical data in R
Produce well-formatted tables for psychological research
Computational models for prospect theory and other theories of risky decision making
Principal Tensor Analysis on k modes
Personalized Treatment Evaluator
Point-In-Polyhedron Test (2D and 3D)
Time Dependent Point Process Modelling
Parametric Time Warping
Performs simulation study to look for publication bias, using a technique described by Ioannidis and
Trikalinos; Clin Trials. 2007;4(3):245-53
Text mining of PubMed Abstracts
PubMed Word Clouds
Pumilio in R
Bayesian Estimation of Tumor Purity and Clonality
Send push notifications using Pushover
Population Viability Analysis with Data Cloning
p-variation, calculation and application
P-values for Classification
Hierarchical Clustering with P-Values via Multiscale Bootstrap Resampling

PVR
pvsR
pwr
PwrGSD
pwt
pwt8
pxR
pyramid
qat
QCA
QCA3
QCAGUI
qcc
QCGWAS
qcr
qdap
qdapDictionaries
qdapTools
qfa
qgraph
qiimer
qlcMatrix
qLearn
qlspack
qmap
qmethod
qmrparser
qp
qpcR
qPCR.CT
qqman
qrfactor
QRM
qrnn
QSARdata
qtbase
qtl
qtlbim
qtlbook
qtlDesign
qtlhot
qtlmt
qtlnet
QTLRel
qtpaint
qtutils

Computes phylogenetic eigenvectors regression (PVR) and phylogenetic signal-representation curve

(PSR) (with null and Brownian expectations)
An R package to interact with the Project Vote Smart API for scientific research
Basic functions for power analysis
Power in a Group Sequential Design
Penn World Table (Versions 5.6, 6.x, 7.x)
Penn World Table (Version 8.0)
PC-Axis with R
Functions to draw population pyramid
Quality Assurance Toolkit
A Package for Qualitative Comparative Analysis
Yet another package for Qualitative Comparative Analysis
QCA Graphical User Interface
Quality Control Charts
Quality Control of Genome Wide Association Study results
Quality control and reliability
Bridging the gap between qualitative data and quantitative analysis
Dictionaries and word lists for the qdap package
Tools for the qdap package
Tools for modelling the growth dynamics of arrays of large numbers of colonies and performing
quantitative fitness analysis (QFA)
Network-based data visualization
Work with QIIME Output Files in R
Utility sparse matrix functions for Quantitative Language Comparison
Estimation and inference for Q-learning
Quasi Least Square Package
Statistical transformations for post-processing climate model output
Analysis of subjective perspectives using Q methodology
Parser combinator in R
q-order partial correlation graph search algorithm
Modelling and analysis of real-time PCR data
qPCR data analysis and plot package
Q-Q and manhattan plots for GWAS data
Simultaneous simulation of Q and R mode factor analyses with Spatial data
Provides R-language Code to Examine Quantitative Risk Management Concepts
Quantile regression neural network
Quantitative Structure Activity Relationship (QSAR) Data Sets
Interface between R and Qt
Tools for analyzing QTL experiments
QTL Bayesian Interval Mapping
Datasets for the R/qtl book
Design of QTL experiments
Inference for QTL Hotspots
Tools for mapping multiple complex traits
Causal Inference of QTL Networks
Tools for mapping of quantitative traits of genetically related individuals and calculating identity
coefficients from a pedigree
Qt-based painting infrastructure
Miscellaneous Qt-based utilities

QuACN
quadprog
quadrupen
qualCI
qualityTools
qualV
Quandl
quantchem
QuantifQuantile
quantmod
QuantPsyc
quantreg
quantregForest
quantregGrowth
quantspec
QuasiSeq
questionr
queueing
QUIC
quint
quipu
qVarSel
qvcalc
QZ
R.cache
R.devices
R.filesets
R.huge
R.matlab
R.methodsS3
R.oo
R.rsp
R.utils
R0
R1magic
R2admb
R2BayesX
R2Cuba
r2d2
r2dRue
R2G2
R2GUESS
R2HTML
R2jags
r2lh
R2MLwiN
R2OpenBUGS

QuACN: Quantitative Analysis of Complex Networks

Functions to solve Quadratic Programming Problems
Sparsity by Worst-Case Quadratic Penalties
Causal Inference with Qualitative and Ordinal Information on Outcomes
Statistical Methods for Quality Science
Qualitative Validation Methods
Quandl Data Connection
Quantitative chemical analysis: calibration and evaluation of results
Estimation of conditional quantiles using optimal quantization
Quantitative Financial Modelling Framework
Quantitative Psychology Tools
Quantile Regression
Quantile Regression Forests
Growth charts via regression quantiles
Quantile-based Spectral Analysis of Time Series
Analyzing RNA sequence count tables using quasi-likelihood
Functions to make surveys processing easier
Analysis of Queueing Networks and Models
Regularized sparse inverse covariance matrix estimation
Qualitative Interaction Trees
Summary charts of micro satellite profiles for a set of biological samples
Variables Selection for Clustering and Classification
Quasi variances for factor effects in statistical models
Generalized Eigenvalues and QZ Decomposition
Fast and light-weight caching (memoization) of objects and results to speed up computations
Unified handling of graphics devices
Easy handling of and access to files organized in structured directories
Methods for accessing huge amounts of data [DEPRECATED]
Read and write of MAT files together with R-to-MATLAB connectivity
Utility function for defining S3 methods
R object-oriented programming with or without references
Dynamic generation of scientific reports
Various programming utilities
Estimation of R0 and real-time reproduction number from epidemics
Compressive Sampling: Sparse signal recovery utilities
ADMB to R interface functions
Estimate Structured Additive Regression Models with BayesX
Multidimensional Numerical Integration
Bivariate (Two-Dimensional) Confidence Region and Frequency Distribution
2d Rain Use Efficience model
Converting R CRAN outputs into Google Earth
Wrapper functions for GUESS
HTML exportation for R objects
A Package for Running jags from R
R to LaTeX and HTML
Running MLwiN from within R
Running OpenBUGS from R

R2PPT
R2STATS
r2stl
R2SWF
R2wd
R2WinBUGS
R330
R4CDISC
R4CouchDB
R4dfp
r4ss
race
RAD
RADami
RadioSonde
RadOnc
rags2ridges
RAHRS
rainbow
raincpc
rainfreq
rAltmetric
Rambo
RAMpath
ramps
randaes
random
random.polychor.pa
RandomFields
randomForest
randomForestSRC
randomGLM
randomizationInference
randomizeBE
randomLCA
randomNames
randomSurvivalForest
randomUniformForest
randtests
randtoolbox
RandVar
rangeMapper
RankAggreg
Rankcluster
rankhazard
RankResponse
RANN

Simple R Interface to Microsoft PowerPoint using rcom or RDCOMClient

A GTK GUI for fitting and comparing GLM and GLMM in R
r2stl, R package for visualizing data using a 3D printer
Convert R Graphics to Flash Animations
Write MS-Word documents from R
Running WinBUGS and OpenBUGS from R / S-PLUS
An R package for Stats 330
Read CDISC data files
A R convenience layer for CouchDB
4dfp MRI Image Read and Write Routines
R code for Stock Synthesis
Racing methods for the selection of the best
Fit RAD models to biological data
R Package for Phylogenetic Analysis of RADseq Data
Tools for plotting skew-T diagrams and wind profiles
Analytical Tools for Radiation Oncology
Ridge Estimation of Precision Matrices from High-Dimensional Data
Data fusion filters for Attitude Heading Reference System (AHRS) with several variants of the Kalman
filter and the Mahoney and Madgwick filters
Rainbow plots, bagplots and boxplots for functional data
Obtain and Analyze Rainfall Data from the Climate Prediction Center
Rainfall Frequency (Design Storm) Estimates from the US National Weather Service
Retrieves altmerics data for any published paper from altmetrics.com
The Random Subgraph Model
Structural Equation Modeling using the reticular action model (RAM) Notation
Bayesian Geostatistical Modeling with RAMPS
Random number generator based on AES cipher
True random numbers using random.org
A Parallel Analysis With Polychoric Correlation Matrices
Simulation and Analysis of Random Fields
Breiman and Cutler's random forests for classification and regression
Random Forests for Survival, Regression and Classification (RF-SRC)
Random General Linear Model Prediction
Flexible Randomization-Based Inference
Function to create a random list for crossover studies
Random Effects Latent Class Analysis
Random name generating function and data set
Random Survival Forests
Random Uniform Forests for Classification and Regression
Testing randomness in R
toolbox for pseudo and quasi random number generation and RNG tests
Implementation of random variables
A platform for the study of macroecology of life history traits
Weighted rank aggregation
Model-based clustering for multivariate partial ranking data
Rank-hazard plots
Ranking Responses in a Single Response Question or a Multiple Response Question
Fast Nearest Neighbour Search (wraps Arya and Mount's ANN library)

RAP
RapidPolygonLookup
RAPIDR
RApiSerialize
RAppArmor
rapport
rapportools
RArcInfo
rareNMtests
Rarity
rARPACK
RaschSampler
rasclass
raster
rasterVis
rateratio.test
raters
rationalfun
RAtmosphere
rattle
rAverage
rAvis
rawFasta
rbamtools
rbefdata
rbenchmark
RBerkeley
rBeta2009
rbhl
RbioRXN
rbiouml
rbison
Rbitcoin
rbitcoinchartsapi
rbmn
rbounds
rbugs
rbundler
RC
RCA
RCALI
Rcapture
rCarto
RCassandra
rcdd
rcdk
rcdklibs

Reversal Association Pattern

Polygon lookup using kd trees
RAPIDR: Reliable Accurate Prenatal non-Invasive Diagnosis R package
R API Serialization
Interfaces to Linux and AppArmor security methods
A report templating system
Miscellaneous (stats) helper functions with sane defaults for reporting
Functions to import data from Arc/Info V7.x binary coverages
Ecological and biogeographical null model tests for comparing rarefaction curves
Calculation of rarity indices for species and assemblages of species
R wrapper of ARPACK for large scale eigenvalue/vector problems, on both dense and sparse matrices
Rasch Sampler
Supervised Raster Image Classification
raster: Geographic data analysis and modeling
Visualization methods for the raster package
Exact rate ratio test
An index of inter-rater agreement among a set of raters
Manipulation of Rational Functions
Standard Atmospheric profiles
Graphical user interface for data mining in R
Parameter estimation for the averaging model of Information Integration Theory
Interface to the bird-watching datasets at proyectoavis.com
Memory efficient handling of FASTA sequence files, a pure R implementation
Reading, manipulation and writing BAM (Binary alignment) files
BEFdata R package
Benchmarking routine for R
R API to Oracle Berkeley DB
The Beta Random Number and Dirichlet Random Vector Generating Functions
R interface to the Biodiversity Heritage Library
RbioRXN - process Rhea, KEGG, MetaCyc, Unipathway biochemical reaction data
Functions to interact with BioUML server
R interface to the USGS BISON API
R & bitcoin integration
R Package for the BitCoinCharts.com API
Handling Linear Gaussian Bayesian Networks
Perform Rosenbaum bounds sensitivity tests for matched and unmatched data
Fusing R and OpenBugs and Beyond
Rbundler manages an application's dependencies systematically and repeatedly
Reproducible Computing
Relational Class Analysis
Calculation of the Integrated Flow of Particles between Polygons
Loglinear Models for Capture-Recapture Experiments
This package builds maps with a full cartographic layout
R/Cassandra interface
rcdd (Computational Geometry)
rcdk - Interface to the CDK Libraries
rcdklib - CDK libraries packaged for R

RCEIM
Rcell
Rcgmin
Rchoice
rChoiceDialogs
RCircos
RClimMAWGEN
rClinicalCodes
Rclusterpp
rCMA
Rcmdr
RcmdrPlugin.BCA
RcmdrPlugin.coin
RcmdrPlugin.depthTool
s
RcmdrPlugin.doBy
RcmdrPlugin.DoE
RcmdrPlugin.doex
RcmdrPlugin.EACSPIR
RcmdrPlugin.EBM
RcmdrPlugin.epack
RcmdrPlugin.EZR
RcmdrPlugin.HH
RcmdrPlugin.IPSUR
RcmdrPlugin.KMggplot2
RcmdrPlugin.lfstat
RcmdrPlugin.MA
RcmdrPlugin.mosaic
RcmdrPlugin.MPAStats
RcmdrPlugin.NMBU
RcmdrPlugin.orloca
RcmdrPlugin.plotByGro
up
RcmdrPlugin.pointG
RcmdrPlugin.qual
RcmdrPlugin.sampling
RcmdrPlugin.SCDA
RcmdrPlugin.seeg
RcmdrPlugin.SLC
RcmdrPlugin.SM
RcmdrPlugin.sos
RcmdrPlugin.Statistical
URV
RcmdrPlugin.survival
RcmdrPlugin.TeachingD
emos
RcmdrPlugin.temis
RcmdrPlugin.UCA

RCEIM - R Cross Entropy Inspired Method for Optimization

Microscopy Based Cytometry Data Analysis Package
Conjugate gradient minimization of nonlinear functions with box constraints
Discrete Choice (Binary, Poisson and Ordered) Models with Random Parameters
rChoiceDialogs collection
Circos 2D Track Plot
RClimMAWGEN (R Climate Index Multi-site Auto-regressive Weather GENeretor): a package to
generate time series of climate indices from RMAWGEN generations
R tools for integrating with the www.clinicalcodes.org repository
Linkable C++ clustering
CMA-ES R-to-Java interface
R Commander
Rcmdr Plug-In for Business and Customer Analytics
Rcmdr Coin Plug-In
R commander Depth Tools Plug-In
Rcmdr doBy Plug-In
R Commander Plugin for (industrial) Design of Experiments
Rcmdr plugin for Stat 4309 course
Plugin de R-Commander para el manual EACSPIR
Rcmdr Evidence Based Medicine Plug-In package
Rcmdr plugin for time series
R Commander Plug-in for the EZR (Easy R) Package
Rcmdr support for the HH package
An IPSUR Plugin for the R Commander
An Rcmdr Plug-In for Kaplan-Meier Plots and Other Plots by Using the ggplot2 Package
Rcmdr Plug-In for low flow analysis
Graphical User Interface for Conducting Meta-Analyses in R
Adds menu items to produce mosaic plots and assoc plots to Rcmdr
R Commander Plug-in for MPA Statistics
R Commander Plug-In for statistics at NMBU
orloca Rcmdr Plug-in
Rcmdr plots by group using lattice
Graphical POINT of view for questionnaire data Rcmdr Plug-In
Rcmdr plugin for quality control course
Tools for sampling in Official Statistical Surveys
Rcmdr plugin for designing and analyzing single-case experiments
Rcmdr Plugin for seeg
SLC Rcmdr Plug-in
Rcmdr Sport Management Plug-In
Efficiently search the R help pages
Statistical URV Rcmdr Plug-In
R Commander Plug-in for the survival Package
Rcmdr Teaching Demos Plug-In
Graphical Integrated Text Mining Solution
UCA Rcmdr Plug-in

Rcolombos
RColorBrewer
Rcplex
RCPmod
Rcpp
Rcpp11
RcppArmadillo
RcppBDT
rcppbugs
RcppClassic
RcppClassicExamples
RcppCNPy
RcppDE
RcppEigen
RcppExamples
RcppGSL
RcppOctave
RcppProgress
RcppRedis
RcppRoll
RcppSMC
RcppXts
RcppZiggurat
rcqp
Rcsdp
rCUR
RCurl
Rd2roxygen
rda
rdatamarket
rdd
rdetools
RDIDQ
RDieHarder
Rdistance
rDNA
Rdpack
rdrobust
Rdrools
Rdroolsjars
rdryad
RDS
Rdsm
RDSTK
rDVR
rdyncall
ReacTran

Interface to Colombos Compendia using the exposed REST API

ColorBrewer palettes
R interface to CPLEX
Regions of common profiles modelling with mixtures-of-experts
Seamless R and C++ Integration
R and C++11
Rcpp integration for Armadillo templated linear algebra library
Rcpp bindings for the Boost Date_Time library
R binding for cppbugs
Deprecated 'classic' Rcpp API
Examples using RcppClassic to interface R and C++
Rcpp bindings for NumPy files
Global optimization by differential evolution in C++
Rcpp integration for the Eigen templated linear algebra library
Examples using Rcpp to interface R and C++
Rcpp integration for GNU GSL vectors and matrices
Seamless Interface to Octave and Matlab
An interruptible progress bar with OpenMP support for c++ in R packages
Rcpp bindings for Redis using the hiredis library
Fast rolling functions through Rcpp and RcppArmadillo
Rcpp bindings for Sequential Monte Carlo
Interface the xts API via Rcpp
Rcpp integration of different Ziggurat Normal RNG implementations
Interface to the Corpus Query Protocol
R interface to the CSDP semidefinite programming library
CUR decomposition package
General network (HTTP/FTP/...) client interface for R
Convert Rd to roxygen documentation and utilities to improve documentation
Shrunken Centroids Regularized Discriminant Analysis
Data access API for DataMarket.com
Regression Discontinuity Estimation
Relevant Dimension Estimation (RDE) in Feature Spaces
It perform Quality check on data
R interface to the dieharder RNG test suite
Distance sampling analyses
R Bindings for the Discourse Network Analyzer
Update and manipulate Rd documentation objects
Robust data-driven statistical inference in Regression-Discontinuity designs
A rules engine for R based on Drools
Rdrools jars
Dryad API interface
Respondent-Driven Sampling
Threads Environment for R
An R wrapper for the Data Science Toolkit API
The rDVR package allows you to start stop and save a video server from within R
Improved Foreign Function Interface (FFI) and Dynamic Bindings to C Libraries (e.g. OpenGL)
Reactive transport modelling in 1D, 2D and 3D

readbitmap
readBrukerFlexData
reader
readMLData
readMzXmlData
readODS
reams
Rearrangement
REBayes
rebird
rebmix
recalls
reccsim
ReCiPa
recluster
recommenderlab
recommenderlabBX
recommenderlabJester
Records
RECSO
REdaS
REEMtree
ref
referenceIntervals
RefFreeEWAS
refGenome
RefManageR
refund
RegClust
REGENT
registry
reglogit
regpro
regress
regRSM
regsubseq
regtest
rehh
rela
relaimpo
relations
RelativeRisk
relax
relaxnet
relaxo
reldist
relevent

Read bitmap images (BMP,JPEG,PNG) without external dependencies

Reads mass spectrometry data in Bruker *flex format
A suite of functions to flexibly read data from files
Reading machine learning benchmark data sets from different sources in their original format
Reads mass spectrometry data in mzXML format
Read ODS files and puts them into data frames
Resampling-Based Adaptive Model Selection
Monotonize point and interval functional estimates by rearrangement
Empirical Bayes Estimation and Inference in R
Interface to eBird
The Rebmix Package
Access U.S. Federal Government Recall Data
Simulation of Rare Events Case-Control Studies
Redundancy Control in Pathways databases
Ordination methods for the analysis of beta-diversity indices
Lab for Developing and Testing Recommender Algorithms
Book-Crossing Dataset (BX) for recommenderlab
Jester Dataset for recommenderlab
Record Values and Record Times
Robust and Efficient Analysis using Control function approach, of a Secondary Outcome
Companion Package to the Book R: Einfhrung durch angewandte Statistik
Regression Trees with Random Effects for Longitudinal (Panel) Data
References for R
Reference Intervals
EWAS using reference-Free DNA methylation mixture deconvolution
Managing data from Ensembl and UCSC genome browsers
Straightforward BibTeX and BibLaTeX Bibliography Management
Regression with Functional Data
Cluster analysis via regression coefficients
REGENT: Risk Estimation for Genetic and Environmental Traits
Registry infrastructure
Simulation-based Regularized Logistic Regression
Nonparametric Regression
Gaussian linear models with linear covariance structure
Random Subspace Method (RSM) for linear regression
Detect and Test Regular Sequences and Subsequences
Regression testing
Searching for footprints of selection using Haplotype Homozygosity based tests
Item Analysis Package with Standard Errors
Relative importance of regressors in linear models
Data Structures and Algorithms for Relations
Relative Risk
relax R Editor for Literate Analysis and lateX
Relaxation of glmnet models (as in relaxed lasso, Meinshausen 2007)
Relaxed Lasso
Relative Distribution Methods
Relational Event Models

Reliability
ReliabilityTheory
reliaR
relimp
relSim
relsurv
RelValAnalysis
remix
rEMM
remMap
Renext
RenextGUI
rentrez
Reol
Reot
RepeatedHighDim
repfdr
repmis
repolr
ReporteRs
ReporteRsjars
reportr
reportRx
reports
reporttools
REPPlab
represent
REQS
resample
resemble
reshape
reshape2
reshapeGUI
ResistorArray
ResourceSelection
restlos
restorepoint
retimes
reutils
revealedPrefs
review
reweight
rexpokit
Rfacebook
rFerns
RFGLS
rfigshare

Functions for estimating parameters in software reliability models

Tools for structural reliability analysis
Package for some probability distributions
Relative Contribution of Effects in a Regression Model
Relative Simulator
Relative survival
Relative Value Analysis
Remix your data
Extensible Markov Model (EMM) for Data Stream Clustering in R
Regularized Multivariate Regression for Identifying Master Predictors
Renewal method for extreme values extrapolation
GUI for Renext
Entrez in R
R interface to the Encyclopedia of Life
Empirical Orthogonal Teleconnections in R
Global tests for expression data of high-dimensional sets of molecular features
Replicability Analysis for Multiple Studies of High Dimension
A collection of miscellaneous tools for reproducible research with R
Repeated measures proportional odds logistic regression
Microsoft Word, Microsoft Powerpoint and HTML documents generation from R
External jars required for package ReporteRs
A general message and error reporting system
Tools for automatically generating reproducible clinical report
An R package to assist in the workflow of writing academic articles and other reports
Generate LaTeX tables of descriptive statistics
R interface to EPP-lab, a Java program for exploratory projection pursuit
Determine the representativity of two multidimensional data sets
R/EQS Interface
Resampling functions
Regression and similarity evaluation for memory-based learning in spectral chemometrics
Flexibly reshape data
Flexibly reshape data: a reboot of the reshape package
A GUI for the reshape2 and plyr packages
electrical properties of resistor networks
Resource Selection (Probability) Functions for Use-Availability Data
Robust estimation of location and scatter
Debugging with restore points
Reaction Time Analysis
Talk to the NCBI EUtils
Revealed preferences and microeconomic rationality
Manage Review Logs
Adjustment of Survey Respondent Weights
R wrappers for EXPOKIT; other matrix functions
Access to Facebook API via R
Random ferns classifier
Rapid Feasible Generalized Least Squares
an R interface to figshare.com

RFinanceYJ
rfishbase
rfisheries
Rfit
RFLPtools
RfmriVC
RFOC
RForcecom
rforensicbatwing
rfPermute
RFreak
rgabriel
rgam
rGammaGamma
rgauges
rgbif
Rgbp
RGCCA
rgcvpack
rgdal
RGENERATE
RGenetics
rgenoud
rgeos
rgexf
rggobi
RGIFT
rgl
Rglpk
Rgnuplot
RgoogleMaps
rgp
rgpui
rgr
RGraphics
rgrs
RGtk2
RGtk2Extras
RH2
rHealthDataGov
Rhh
RHive
RHmm
rhosp
Rhpc
RhpcBLASctl
rHpcc

RFinanceYJ
R Interface to FishBASE
R interface for fisheries data
Rank Estimation for Linear Models
Tools to analyse RFLP data
Varying stimulus coefficient fMRI models in R
Graphics for Spherical Distributions and Earthquake Focal Mechanisms
RForcecom provides the connection to Force.com and Salesforce.com from R
BATWING for calculating forensic trace-suspect match probabilities
Estimate permutation p-values for Random Forest importance metrics
R/FrEAK interface
Gabriel Multiple Comparison Test and Plot the Confidence Interval on Barplot
Robust Generalized Additive Model
Gamma convolutions for methylation array background correction
R wrapper to Gaug.es API
Interface to the Global Biodiversity Information Facility API
Gaussian, Poisson, and Binomial Hierarchical Modeling
RGCCA and Sparse GCCA for multi-block data analysis
R Interface for GCVPACK Fortran Package
Bindings for the Geospatial Data Abstraction Library
RGENERATE A tool for generation random variable time series using the tools of 'vars' or 'RMAWGEN'
R packages for genetics research
R version of GENetic Optimization Using Derivatives
Interface to Geometry Engine - Open Source (GEOS)
An R package to build GEXF graph files
Interface between R and GGobi
Create quizzes in GIFT Format
3D visualization device system (OpenGL)
R/GNU Linear Programming Kit Interface
R interface for gnuplot
Overlays on Google map tiles in R
R genetic programming framework
UI for the RGP genetic programming framework
The GSC Applied Geochemistry EDA Package
Data and Functions from the book R Graphics, Second Edition
Functions to make R usage in social sciences easier (in french)
R bindings for Gtk 2.8.0 and above
Data frame editor and dialog making wrapper for RGtk2
DBI/RJDBC interface to h2 Database
Retrieve data sets from the HealthData.gov data API
Calculating multilocus heterozygosity and heterozygosity-heterozygosity correlation
R and Hive
Hidden Markov Models simulations and estimations
Side effect risks in hospital : simulation and estimation
An R package for High-Performance Computing
Control the number of threads on BLAS for R
Interface between HPCC and R

RHRV
RHT
ri
RI2by2
rich
ridge
RidgeFusion
Ridit
RIFS
RIGHT
RImageJROI
RImpala
rinat
rindex
ringbuffer
ringscale
RInside
RInSp
rio
rioja
ripa
risaac
riskRegression
risksetROC
RISmed
Ritc
rite
RItools
riv
riverplot
rivervis
Rivivc
RJaCGH
rjags
rJava
rJavax
RJDBC
rje
Rjms
Rjmsjars
rJPSGCS
Rjpstatdb
rjson
RJSONIO
RJSONLD
rJython
RKEA

Heart rate variability analysis of ECG data

Regularized Hotelling's T-square Test for Pathway (Gene Set) Analysis
ri: R package for performing randomization-based inference for experiments
Randomization inference for treatment effects on a binary outcome
Computes and compares species richnesses
Ridge Regression with automatic selection of the penalty parameter
R Package for Ridge Fusion in Statistical Learning
Ridit Analysis (An extension of the Kruskal-Wallis Test.)
Random Iterated Function System (RIFS)
R Interactive Graphics via HTml
Read ImageJ Region of Interest (ROI) files
RImpala
Access iNaturalist data through APIs
Indexing for R
Ring buffer (circular buffer) data structure
Ringscale
C++ classes to embed R in C++ applications
R Individual Specialization (RInSp) package
A Swiss-army knife for data file I/O
Analysis of Quaternary Science Data
R Image Processing and Analysis
A fast cryptographic random number generator using ISAAC by Robert Jenkins
Risk regression for survival analysis
Riskset ROC curve estimation from censored survival data
Download content from NCBI databases
Isothermal Titration Calorimetry (ITC) Data Analysis
The Right Editor to Write R
Randomization inference tools
Robust instrumental variables estimator
Sankey or ribbon plots
River Visualisation Tool
In vitro in vivo correlation linear level A
Reversible Jump MCMC for the analysis of CGH arrays
Bayesian graphical models using MCMC
Low-level R to Java interface
rJava extensions
Provides access to databases through the JDBC interface
Miscellaneous useful functions
R messaging using ActiveMQ and jms
Rjms jars
R-interface to gene drop Java Programs for Statistical Genetics and Computational Statistics (JPSGCS)
R interface of the Gateway to Advanced and User-friendly Statistics Service
JSON for R
Serialize R objects to JSON, JavaScript Object Notation
Semantic packaging tools for standard analytics
R interface to Python via Jython
R/KEA interface

rknn
Rknots
rkt
rkvo
Rlab
Rlabkey
rLakeAnalyzer
rlecuyer
rLindo
rlist
rlme
RLRsim
RM2
rmaf
RMallow
Rmalschains
RMark
rmatio
RMAWGEN
RMC
RMediation
RMendeley
RMessenger
rmeta
rmetasim
rmgarch
rminer
Rmisc
Rmixmod
rmmseg4j
rmngb
RMongo
rmongodb
Rmosek
rmp
Rmpfr
Rmpi
rms
rms.gof
RMTstat
RMySQL
RnavGraph
RnavGraphImageData
RNCBI
RNCBIAxis2Libs
RNCBIEUtilsLibs

Random KNN Classification and Regression

Rknots
Mann-Kendall test, Seasonal and Regional Kendall Tests
Read Key/Value Pair Observations
Functions and Datasets Required for ST370 class
Data exchange between R and LabKey Server
Package for the analysis of lake physics
R interface to RNG with multiple streams
R Interface to LINDO API
A toolset for working with lists
Rank-based Estimation and Prediction in Random Effects Nested Models
Exact (Restricted) Likelihood Ratio tests for mixed and additive models
Revenue Management and Pricing Package
Refined Moving Average Filter
Fit Multi-Modal Mallows' Models to ranking data
Continuous Optimization using Memetic Algorithms with Local Search Chains (MA-LS-Chains) in R
R Code for MARK Analysis
Read and write matlab files
RMAWGEN (R Multi-site Auto-regressive Weather GENerator), a package to generate daily time series
of precipitation and temperature from monthly mean values
Functions for fitting Markov models
An R Package for Mediation Analysis Confidence Intervals
Interface to Mendeley API methods
IM Client for R
Meta-analysis
An individual-based population genetic simulation environment
Multivariate GARCH models
Simpler use of data mining methods (e.g. NN and SVM) in classification and regression
Rmisc: Ryan Miscellaneous
An interface for MIXMOD
R interface to the Java Chinese word segmentation system of mmseg4j
rmngb Miscellaneous
MongoDB Client for R
R-MongoDB driver
The R-to-MOSEK Optimization Interface
Rounded Mixture Package. Performs probability mass function estimation with Dirichlet process
mixtures of rounded kernels
R MPFR - Multiple Precision Floating-Point Reliable
Interface (Wrapper) to MPI (Message-Passing Interface)
Regression Modeling Strategies
Root-mean-square goodness-of-fit test for simple null hypothesis
Distributions, Statistics and Tests derived from Random Matrix Theory
R interface to the MySQL database
Using graphs as a navigational infrastructure
Some image data used in the RnavGraph package demos
The java ncbi interface to R
Axis2 libraries for use in the R environment
EUtils libraries for use in the R environment

RNCEP
RND
rneos
RNetCDF
RNetLogo
rngtools
rngWELL
rngwell19937
Rniftilib
RNiftyReg
rnoaa
rNOMADS
ROAuth
RobAStBase
robCompositions
robcor
robeth
robfilter
RobLox
RobLoxBioC
RobPer
RobRex
RobRSVD
RObsDat
robumeta
robust
RobustAFT
robustbase
robustfa
robustgam
robustHD
robustlmm
robustloggamma
RobustRankAggreg
robustreg
robustX
ROC632
rocc
rockchalk
RockFab
rococo
rocplus
ROCR
ROCt
ROCwoGS
RODBC

Obtain, organize, and visualize NCEP weather data

Risk Neutral Density Extraction Package
rneos: XML-RPC Interface to NEOS
R Interface to NetCDF Datasets
Provides an interface to the agent-based modelling platform NetLogo
Utility functions for working with Random Number Generators
toolbox for WELL random number generators
WELL19937a random number generator implemented with 53 bit output
Rniftilib - R Interface to NIFTICLIB (V2.0.0: 2010-07-20)
Medical image registration using the NiftyReg library
NOAA climate data from R
An interface to the NOAA Operational Model Archive and Distribution System
R interface for OAuth
Robust Asymptotic Statistics
Robust Estimation for Compositional Data
Robust Correlations
R functions for robust statistics
Robust Time Series Filters
Optimally robust influence curves and estimators for location and scale
Infinitesimally robust estimators for preprocessing omics data
Robust periodogram methods for irregularly sampled time series and robust periodicity detection
methods
Optimally robust influence curves for regression and scale
Robust Regularized Singular Value Decomposition
Store your observations: R-Interface to the Observations Data Model from QUASHI
Robust variance meta-regression
Robust Library
Truncated Maximum Likelihood fit and Robust Accelerated Failure Time regression for Gaussian and
log-Weibull case
Basic Robust Statistics
An Object Oriented Solution for Robust Factor Analysis
Robust Estimation for Generalized Additive Models
Robust methods for high-dimensional data
Robust Linear Mixed Effects Models
Robust estimation of the generalized log gamma model
Methods for robust rank aggregation
Robust Regression Functions
eXperimental Functionality for Robust Statistics
Construction of diagnostic or prognostic scoring system and internal validation of its discriminative
capacities based on ROC curve and 0.633+ boostrap resampling
ROC based classification
Regression Estimation and Presentation
Rock fabric and strain analysis tools
RObust rank COrrelation COefficient and test
ROC, Precision-Recall, Convex Hull and other plots
Visualizing the performance of scoring classifiers
Time-dependent ROC curve estimation and adaptation to the relative survival context
Non-parametric estimation of ROC curves without Gold Standard Test
ODBC Database Access

RODBCext
RODM
ROI
ROI.plugin.glpk
ROI.plugin.quadprog
ROI.plugin.symphony
Rook
rootSolve
ROptEst
ROptEstOld
ROptRegTS
ror
ROracle
rorutadis
ROSE
rotations
Rothermel
RoughSets
roxygen
roxygen2
royston
rpanel
rpart
rpart.plot
rpart.utils
rpartitions
rpartScore
RPCLR
Rpdb
rpf
rphast
Rphylip
rPlant
rplos
rplotengine
RPMG
RPMM
Rpoppler
rportfolios
RPostgreSQL
RPPanalyzer
rprintf
RProtoBuf
rpsychi
rpubchem
RPublica
rpud

Parameterized queries extension for RODBC

R interface to Oracle Data Mining
R Optimization Infrastructure
ROI-plugin GLPK
ROI-plugin quadprog
ROI-plugin symphony
Rook - a web server interface for R
Nonlinear root finding, equilibrium and steady-state analysis of ordinary differential equations
Optimally robust estimation
Optimally robust estimation - old version
Optimally robust estimation for regression-type models
Robust Ordinal Regression MCDA library
OCI based Oracle database interface for R
Robust Ordinal Regression UTADIS
ROSE: Random Over-Sampling Examples
Tools for Working with Rotation Data
Rothermel fire spread model for R
Data Analysis Using Rough Set and Fuzzy Rough Set Theories
Literate Programming in R
In-source documentation for R
Royston's H Test: Multivariate Normality Test
Simple interactive controls for R using the tcltk library
Recursive Partitioning and Regression Trees
Plot rpart models. An enhanced version of plot.rpart
Tools for parsing and manipulating rpart objects, including generating machine readable rules
Code for integer partitioning
Classification trees for ordinal responses
RPCLR (Random-Penalized Conditional Logistic Regression)
Read, write, visualize and manipulate PDB files
Response Probability Functions
R interface to PHAST software for comparative genomics
An R interface for PHYLIP
R interface to the iPlant Discovery Environment
Interface to PLoS Journals search API
R as a plotting engine
Graphical User Interface (GUI) for interactive R analysis sessions
Recursively Partitioned Mixture Model
PDF tools based on Poppler
Random portfolio generation
R interface to the PostgreSQL database system
Reads, annotates, and normalizes reverse phase protein array data
Adaptive builder for formatted strings
R Interface to the Protocol Buffers API
Statistics for psychiatric research
rpubchem - Interface to the PubChem Collection
ProPublica API Client
R functions for computation on GPU

RPushbullet
RPyGeo
rPython
RQDA
Rquake
RQuantLib
Rramas
rrBLUP
rrBlupMethod6
rrcov
rrcovHD
rrcovNA
rrdf
rrdflibs
Rrdrand
rredis
RRF
rriskDistributions
rrlda
rrules
RSA
RSADBE
rsae
RSAGA
RSAP
rSCA
RSclient
rscproxy
RSDA
rsdepth
RSeed
rseedcalc
RSEIS
RSelenium
rsem
Rserve
rSFA
rsgcc
RSGHB
RSiena
rsig
RsimMosaic
RSiteCatalyst
RSKC
rsm
RSNNS
rsnps

R interface to the wonderful Pushbullet service

ArcGIS Geoprocessing in R via Python
Package allowing R to call Python
R-based Qualitative Data Analysis
Seismic Hypocenter Determination
R interface to the QuantLib library
Matrix population models
Ridge regression and other kernels for genomic selection
Re-parametrization of RR-BLUP to allow for a fixed residual variance
Scalable Robust Estimators with High Breakdown Point
Robust multivariate Methods for High Dimensional Data
Scalable Robust Estimators with High Breakdown Point for Incomplete Data
rrdf - support for the Resource Description Framework
rrdflibs - package with Jena and Apache HTTP libraries for use with rrdf
Generate Physical Random Numbers on Intel CPUs with the RdRand instruction
Redis client for R
Regularized Random Forest
Fitting distributions to given data or known quantiles
Robust Regularized Linear Discriminant Analysis
Generic rule engine for R
Response surface analysis
Data related to the book "R Statistical Application Development by Example"
Robust Small Area Estimation
SAGA Geoprocessing and Terrain Analysis in R
SAP Netweaver RFC connector for R
An R Package for Stepwise Cluster Analysis
Client for Rserve
statconn: provides portable C-style interface to R (StatConnector)
RSDA - R to Symbolic Data Analysis
Ray Shooting Depth (i.e. RS Depth) functions for bivariate analysis
borenstein analysis
Estimating the proportion of genetically modified stacked seeds in seedlots via multinomial group testing
Seismic Time Series Analysis Tools
R bindings for Selenium WebDriver
Robust Structural Equation Modeling with Missing Data and Auxiliary Variables
Binary R server
Slow Feature Analysis in R
Gini methodology-based correlation and clustering analysis of microarray and RNA-Seq gene
expression data
Functions for Hierarchical Bayesian Estimation: A Flexible Approach
Siena - Simulation Investigation for Empirical Network Analysis
Robust Signature Selection for Survival Outcomes
R Simple IMage Mosaic creation library
Adobe Analytics Reporting API
Robust sparse K-means
Response-surface analysis
Neural Networks in R using the Stuttgart Neural Network Simulator (SNNS)
Get SNP (Single-Nucleotide Polymorphism) data on the web

RSNPset
RSocrata
RSofia
Rsolnp
Rsomoclu
rspa
rspear
RSpincalc
rsprng
RSQLite
RSQLite.extfuns
Rssa
rstiefel
RStorm
rstream
rstudioapi
Rsundials
RSurvey
RSvgDevice
RSVGTipsDevice
Rsymphony
rSymPy
rtape
RTConnect
rtematres
rTensor
RTextTools
RTextureMetrics
rtf
rtfbs
rtiff
RTOMO
rtop
rts
Rtsne
Rttf2pt1
Ruchardet
rugarch
RUnit
Runiversal
runjags
Runuran
RunuranGUI
rv
RVAideMemoire
Rvcg

RSNPset
Download Socrata datasets as R data frames
Port of sofia-ml (http://code.google.com/p/sofia-ml/) to R
General Non-linear Optimization
R package for somoclu
Adapt numerical records to fit (in)equality restrictions with the Successive Projection Algorithm
Calculate SPEARpesticide in R (http://www.systemecology.eu/SPEAR/index.php)
Package for converting between attitude representations: DCM, Euler angles, Quaternions, and Euler
vectors
R interface to SPRNG (Scalable Parallel Random Number Generators)
SQLite interface for R
Math and String Extension Functions for RSQLite
A collection of methods for singular spectrum analysis
Random orthonormal matrix generation on the Stiefel manifold
Simulate and Develop Streaming Processing in [R]
Streams of random numbers
Safely access the RStudio API
Suite of Nonlinear Differential Algebraic Equations Solvers in R
Analysis of Spatially Distributed Data
An R SVG graphics device
An R SVG graphics device with dynamic tips and hyperlinks
Symphony in R
R interface to SymPy computer algebra system
Manage and manipulate large collections of R objects stored as tape-like files
Tools for analyzing sales report files of iTunes Connect
The rtematres API package
Tools for tensor analysis and decomposition
Automatic Text Classification via Supervised Learning
Functions for calculation of texture metrics for Grey Level Co-occurrence Matrices
Rich Text Format (RTF) Output
R Transcription Factor Binding Site identification tool
A tiff reader for R
Visualization for seismic tomography
Interpolation of data with variable spatial support
Raster time series analysis
T-distributed Stochastic Neighbor Embedding using Barnes-Hut implementation
Package for ttf2pt1 program
R package to detect character encoding
Univariate GARCH models
R Unit test framework
Runiversal - Package for converting R objects to Java variables and XML
Interface utilities, parallel computing methods and additional distributions for MCMC models in JAGS
R interface to the UNU.RAN random variate generators
A GUI for the UNU.RAN random variate generators
Simulation-based random variable objects
Diverse basic statistical and graphical functions
Manipulations of triangular meshes (smoothing, quadric edge collapse decimation, im- and export of
various mesh file-formats, cleaning, etc.) based on the VCGLIB API

rvertnet
rvgtest
rvHPDT
RVideoPoker
Rvmmin
RVowpalWabbit
RVsharing
rvTDT
RVtests
Rwave
rWBclimate
RWBP
RWeather
RWebLogo
RWeka
RWekajars
RWiener
RWinEdt
Rwinsteps
rwm
rworldmap
rworldxtra
rwt
RxCEcolInf
RXKCD
RXMCDA
RXshrink
Ryacas
RYoudaoTranslate
ryouready
rysgran
Rz
rzmq
s20x
s2dverification
s4vd
sac
sads
sae
saemix
SAFD
safeBinaryRegression
SAM
Sample.Size
SamplerCompare
sampleSelection
samplesize

Search VertNet database from R

Tools for Analyzing Non-Uniform Pseudo-Random Variate Generators
Calling haplotype-based and variant-based pedigree disequilibrium test for rare variants in pedigrees
Play Video Poker with R
Variable metric nonlinear function minimization with bounds constraints
R interface to the Vowpal Wabbit
RVsharing
population control weighted rare-variants TDT
Rare Variant Tests
Time-Frequency analysis of 1-D signals
A package for accessing World Bank climate data
Detects spatial outliers using a Random Walk on Bipartite Graph
R wrapper around the Yahoo! Weather, Google Weather and NOAA APIs
plotting custom sequence logos
R/Weka interface
R/Weka interface jars
Wiener process distribution functions
R Interface to WinEdt
Running Winsteps in R
R Workspace Management
Mapping global data, vector and raster
Country boundaries at high resolution
Rice Wavelet Toolbox wrapper
R x C Ecological Inference With Optional Incorporation of Survey Information
Get XKCD comic from R
An XMCDA parser for R
Maximum Likelihood Shrinkage via Generalized Ridge or Least Angle Regression
R interface to the yacas computer algebra system
R package provide functions to translate English words into Chinese
Companion to the 'R your ready?' book
Grain size analysis, textural classifications and distribution of unconsolidated sediments
GUI Tool for Data Management like SPSS or Stata
R binding for zmq (http://www.zeromq.org/)
Stats 20x
Set of common tools for model diagnostics
Biclustering via sparse singular value decomposition incorporating stability selection
Semiparametric Analysis of Changepoint
Maximum Likelihood Models for Species Abundance Distributions
Small Area Estimation
Stochastic Approximation Expectation Maximization (SAEM) algorithm
Statistical Analysis of Fuzzy Data
Safe Binary Regression
Sparse Additive Modelling
Sample size calculation
A framework for comparing the performance of MCMC samplers
Sample Selection Models
Sample size calculation for various t-Tests and Wilcoxon-Test

samplesize4surveys
SampleSizeMeans
SampleSizeProportions
sampling
samplingbook
samplingEstimates
SamplingStrata
samplingVarEst
sampSurf
samr
SAMURAI
sand
sandwich
sanon
sapa
SAPP
sas7bdat
SAScii
SASmixed
SASPECT
SASxport
SAVE
saves
saws
sBF
sbgcop
sbioPN
SBSA
sca
scagnostics
scaleboot
scales
scalreg
scam
scape
scar
scaRabee
scatterplot3d
SCBmeanfd
SCEPtER
SCEPtERextras
SCGLR
scholar
schoolmath
schoRsch
schwartz97
SCI

Sample size calculations for complex surveys

Sample size calculations for normal means
Calculating sample size requirements when estimating the difference between two binomial proportions
Survey Sampling
Survey Sampling Procedures
Sampling Estimates
Optimal stratification of sampling frames for multipurpose sampling surveys
Sampling Variance Estimation
Sampling Surface Simulation for Areal Sampling Methods
SAM: Significance Analysis of Microarrays
Sensitivity Analysis of a Meta-analysis with Unpublished but Registered Analytical Investigations
Statistical Analysis of Network Data with R
Robust Covariance Matrix Estimators
Stratified Analysis with Nonparametric covariable adjustment
Spectral Analysis for Physical Applications
Statistical Analysis of Point Processes
SAS Database Reader (experimental)
Import ASCII files directly into R using only a SAS input script
Data sets from "SAS System for Mixed Models"
Significant AnalysiS of PEptide CounTs
Read and Write SAS XPORT Files
Bayesian emulation, calibration and validation of computer models
Fast load variables
Small-Sample Adjustments for Wald tests Using Sandwich Estimators
Smooth Backfitting
Semiparametric Bayesian Gaussian copula estimation and imputation
sbioPN: Simulation of deterministic and stochastic spatial biochemical reaction networks using Petri
Nets
Simplified Bayesian Sensitivity Analysis
Simple Component Analysis
Compute scagnostics - scatterplot diagnostics
Approximately Unbiased P-values via Multiscale Bootstrap
Scale functions for graphics
Scaled sparse linear regression
Shape constrained additive models
Statistical Catch-at-Age Plotting Environment
Shape-Constrained Additive Regression: a Maximum Likelihood Approach
Optimization Toolkit for Pharmacokinetic-Pharmacodynamic Models
3D Scatter Plot
Simultaneous Confidence Bands for the Mean of Functional Data
Stellar CharactEristics Pisa Estimation gRid
Additional grids for SCEPtER
Supervised Component Generalized Linear Regression (SCGLR)
Analyse citation data from Google Scholar
Functions and datasets for math used in school
Tools for analyzing factorial experiments
A package on the Schwartz two-factor commodity model
Standardized Climate Indices such as SPI, SRI or SPEI

scidb
SciencesPo
scio
sciplot
SciViews
SCMA
SCORER2
scoring
ScottKnott
scout
SCperf
ScrabbleScore
scrapeR
ScreenClean
scrime
scriptests
SCRT
scrypt
scuba
SCVA
sda
SDaA
SDBP
sdcMicro
sdcMicroGUI
sdcTable
SDD
SDDA
sddpack
sde
sdef
SDMTools
sdmvspecies
sdnet
sdprisk
sdtoolkit
SE.IGE
seacarb
sealasso
SearchTrees
seas
season
seasonal
seawaveQ
SEchart
SECP
secr

An R interface to SciDB
Tools for analyzing political behaviour data
Sparse Column-wise Inverse Operator
Scientific Graphing Functions for Factorial Designs
SciViews GUI API - Main package
Single-Case Meta-Analysis
SCORER 2.0: an algorithm for distinguishing parallel dimeric and trimeric coiled-coil sequences
Proper scoring rules
The ScottKnott Clustering Algorithm
Implements the Scout method for Covariance-Regularized Regression
Supply Chain Perform
Calculates Scrabble score for strings
Tools for Scraping Data from HTML and XML Documents
Screen and clean variable selection procedures
Analysis of High-Dimensional Categorical Data such as SNP Data
Transcript-based unit tests that are easy to create and maintain
Single-Case Randomization Tests
scrypt key derivation functions for R
Scuba diving calculations and decompression models
Single-Case Visual Analysis
Shrinkage Discriminant Analysis and CAT Score Variable Selection
Sampling: Design and Analysis
Calculate the third-order accurate Unbiased P-values via Speedy double bootstrap method
Statistical Disclosure Control methods for anonymization of microdata and risk estimation
Graphical user interface for package sdcMicro
Methods for statistical disclosure control in tabular data
Serial Dependence Diagrams
Stepwise Diagonal Discriminant Analysis
Semidiscrete Decomposition
Simulation and Inference for Stochastic Differential Equations
Synthesizing List of Differentially Expressed Features
Species Distribution Modelling Tools: Tools for processing data associated with species distribution
modelling exercises
Create virtual species for species distribution modelling
Soft Discretization-based Bayesian Network Inference
Measures of Risk for the Compound Poisson Risk Process with Diffusion
Scenario Discovery Tools to Support Robust Decision Making
Standard errors of estimated genetic parametes
seawater carbonate chemistry with R
Standard Error Adjusted Adaptive Lasso
Spatial Search Trees
Seasonal analysis and graphics, especially for climatology
Seasonal analysis of health data
R interface to X-13ARIMA-SEATS
U.S. Geological Survey seawaveQ model
SEchart
Statistical Estimation of Cluster Parameters (SECP)
Spatially explicit capture-recapture

secrdesign
seeg
seem
SEER2R
SEERaBomb
seewave
seg
segmented
Segmentor3IsBack
Sejong
SEL
selectiongain
selectMeta
selectr
SeleMix
sem
semdiag
semGOF
semiArtificial
SemiCompRisks
SEMID
SemiMarkov
SemiPar
SemiParBIVProbit
SemiParSampleSel
semisupKernelPCA
SEMModComp
semPlot
semPLS
semTools
sendmailR
sendplot
sensitivity
SensitivityCaseControl
sensitivitymv
sensitivitymw
SensoMineR
sensR
SenSrivastava
separationplot
seqCBS
seqDesign
SeqFeatR
SeqGrapheR
seqinr
seqMeta
seqminer

Sampling Design for Spatially Explicit CaptureRecapture

Statistics for Environmental Sciences, Engineering, and Geography
Simulation of Ecological and Environmental Models
reading and writing SEER*STAT data files
SEER Setup and Use with A-Bomb Data
Sound analysis and synthesis
A set of tools for measuring spatial segregation
Segmented relationships in regression models with breakpoints/changepoints estimation
A Fast Segmentation Algorithm
KoNLP static dictionaries and Sejong project resources
Semiparametric elicitation
A tool for calculation and optimization of the expected gain from multi-stage selection
Estimation of weight functions in meta analysis
Translate CSS Selectors to XPath Expressions
Selective Editing via Mixture models
Structural Equation Models
Structural equation modeling diagnostics
Goodness-of-fit indexes for structural equation models
Generator of semi-artificial data
Parametric and semi-parametric analyses of semi-competing risks data
Identifiability of linear structural equation models
Multi-States Semi-Markov Models
Semiparametic Regression
Semiparametric Bivariate Probit Modelling
Semiparametric Sample Selection Modelling with Continuous Response
Kernel PCA projection, and semi-supervised variant
Model Comparisons for SEM
Path diagrams and visual analysis of various SEM packages' output
Structural Equation Modeling Using Partial Least Squares
Useful tools for structural equation modeling
send email using R
Tool for sending interactive plots with tool-tip content
Sensitivity Analysis
Sensitivity Analysis for Case-Control Studies
Sensitivity Analysis in Observational Studies
Sensitivity analysis using weighted M-statistics
Sensory data analysis with R
Thurstonian models for sensory discrimination
Datasets from Sen & Srivastava
Separation Plots
CN Profiling using Sequencing and CBS
Simulation and group sequential monitoring of randomized multi-arm two-stage Phase IIb/III treatment
efficacy trials with time-to-event endpoints
Calculates possible epitopes and co-mutations
Simple GUI for graph based visualization of cluster of DNA sequence reads
Biological Sequences Retrieval and Analysis
An R package for meta-analyzing region-based tests of rare DNA variants
Efficiently Read Sequence Data (VCF format, BCF format and METAL format) into R

seqmon
seqPERM
seqRFLP
sequences
Sequential
sequenza
seriation
servr
sesem
SesIndexCreatoR
session
SetMethods
setRNG
sets
setwidth
severity
sExtinct
sfa
sfsmisc
sft
SGCS
sgeostat
SGL
sglasso
sglOptim
sglr
sgof
SGP
sGPCA
SGPdata
sgr
shape
shapefiles
shapes
SharpeR
sharpshootR
sharx
shiny
shinyAce
shinyBS
shinyFiles
shinyRGL
SHIP
shotGroups
showtext
shp2graph

Sequential Monitoring of Clinical Trials

Generates a permutation matrix based upon a sequence
Simulation and visualization of restriction enzyme cutting pattern from DNA sequences
Generic and biological sequences
Exact Sequential Analysis for Poisson Data
Analysis and visualization of tumor genome sequencing data
Infrastructure for seriation
A simple HTTP server in R
Spatially explicit structural equation modeling
Computation and visualization of socioeconomic indices and categories distributions
Functions for interacting with, saving and restoring R sessions
SetMethods: A Package Companion to "Set-Theoretic Methods for the Social Sciences"
Set (Normal) Random Number Generator and Seed
Sets, Generalized Sets, Customizable Sets and Intervals
Set the value of options("width") on terminal emulators
Mayo's Post-data Severity Evaluation
Calculates the historic date of extinction given a series of sighting events
Stochastic Frontier Analysis
Utilities from Seminar fuer Statistik ETH Zurich
Functions for Systems Factorial Technology Analysis of Data
Spatial Graph based Clustering Summaries for spatial point patterns
An Object-oriented Framework for Geostatistical Modeling in S+
Fit a GLM (or cox model) with a combination of lasso and group lasso regularization
Lasso method for RCON(V,E) models
Sparse group lasso generic optimizer
An R package for power and boundary calculations in pre-licensure vaccine trials using a sequential
generalized likelihood ratio test
Multiple hypothesis testing
An R Package for the Calculation and Visualization of Student Growth Percentiles & Percentile Growth
Trajectories
Sparse Generalized Principal Component Analysis
Exemplar data sets for SGP analyses
Sample Generation by Replacement
Functions for plotting graphical shapes, colors
Read and Write ESRI Shapefiles
Statistical shape analysis
Statistical significance of Sharpe ratio
A collection of functions to support soil survey
Models and Data Sets for the Study of Species-Area Relationships
Web Application Framework for R
Ace editor bindings for Shiny
Twitter Bootstrap Components for Shiny
A server-side file system viewer for shiny
Shiny Wrappers for RGL
SHrinkage covariance Incorporating Prior knowledge
Analyze shot group data
Enable (any) R Graphics Device to Show Text Using System Fonts
Convert a SpatialLinesDataFrame object to a "igraph-class" object

shrink
ShrinkCovMat
shuffle
siar
sideChannelAttack
sidier
sig
sigclust
SightabilityModel
signal
signalextraction
sigora
SigTree
SII
Sim.DiffProc
simba
simboot
SimComp
SimCorMultRes
simctest
simecol
simex
simexaft
simFrame
SimHap
Simile
SIMMS
simMSM
simone
simPH
simpleboot
SimpleTable
simplexreg
Simpsons
SimRAD
simsalapar
simsem
SimSeq
simSummary
SimuChemPC
SimultAnR
SIN
SINGLE
siplab
sirad

Global, Parameterwise, and Joint Post-Estimation Shrinkage

Shrinkage Covariance Matrix Estimators
The shuffle estimator for explainable variance
Stable Isotope Analysis in R
Side Channel Attack
SIDIER: Substitution and Indel Distances to Infer Evolutionary Relationships
Print function signatures
Statistical Significance of Clustering
Wildlife Sightability Modeling
Signal processing
Real-Time Signal Extraction (Direct Filter Approach)
SIGNATURE OVERREPRESENTATION ANALYSIS
Identify and visualize significantly responsive branches in a phylogenetic tree
Calculate ANSI S3.5-1997 Speech Intelligibility Index
Simulation of Diffusion Processes
A Collection of functions for similarity analysis of vegetation data
Simultaneous inference for diversity indices
Simultaneous Comparisons for Multiple Endpoints
Simulates Correlated Multinomial Responses
Safe implementation of Monte Carlo tests
Simulation of ecological (and other) dynamic systems
SIMEX- and MCSIMEX-Algorithm for measurement error models
simexaft
Simulation framework
A comprehensive modeling framework for epidemiological outcomes and a simulation-based approach
to haplotypic analysis of population-based data
Interact with Simile models
Subnetwork Integration for Multi-Modal Signatures
Simulation of event histories based on nonlinear hazard rate functions and potentially nonlinear
covariate effects
Statistical Inference for MOdular NEtworks (SIMoNe)
Tools for simulating and plotting quantities of interest estimated from Cox Proportional Hazards models
Simple Bootstrap Routines
Bayesian Inference and Sensitivity Analysis for Causal Effects from 2 x 2 and 2 x 2 x K Tables in the
Presence of Unmeasured Confounding
Regression Analysis of Proportional Data Using Simplex Distribution
Detecting Simpson's Paradox
Simulations to predict the number of loci expected in RAD and GBS approaches
Tools for Simulation Studies in Parallel with R
SIMulated Structural Equation Modeling
Nonparametric Simulation of RNA-Seq Data
Simulation summary
Simulation process of 4 selection methods in predicting chemical potent compounds
Correspondence and Simultaneous Analysis
A SINful Approach to Selection of Gaussian Graphical Markov Models
Estimate sparse dynamic graphs using the Smooth Incremental Graphical Lasso Estimation (SINGLE)
algorithm
Spatial individual-plant modelling
Functions for calculating daily solar radiation and evapotranspiration

siRSM
sirt
SIS
sisus
sitar
sitools
SixSigma
SiZer
sjdbc
sjPlot
SKAT
skatMeta
skda
SkewHyperbolic
skewt
Skillings.Mack
skmeans
slam
SLC
Sleuth2
Sleuth3
slfm
SLHD
sltl
sm
smaa
smacof
smam
smart
SmarterPoland
smatr
SMC
smco
SMCP
SMCRM
smcure
smcUtils
smdata
smdc
sme
SMFI5
smfsb
SMIR
smirnov
SmithWilsonYieldCurve
SML
SMNCensReg

Single-Index Response Surface Models

Supplementary Item Response Theory Models
Sure Independence Screening
SISUS: Stable Isotope Sourcing using Sampling
SITAR growth curve analysis
Format a number to a string with SI prefix
Six Sigma Tools for Quality and Process Improvement
SiZer: Significant Zero Crossings
JDBC Driver Interface
sjPlot - data visualization for statistics in social science
SNP-set (Sequence) Kernel Association Test
Efficient meta analysis for the SKAT test
Sparse (Multicategory) Kernel Discriminant Analysis
The Skew Hyperbolic Student t-Distribution
The Skewed Student-t Distribution
The Skillings-Mack test Statistic for block designs with missing observations
Spherical k-Means Clustering
Sparse Lightweight Arrays and Matrices
Slope and level change
Data sets from Ramsey and Schafer's "Statistical Sleuth (2nd ed)"
Data sets from Ramsey and Schafer's "Statistical Sleuth (3rd ed)"
Tools for fitting sparse latent factor model
Maximin-Distance (Sliced) Latin Hypercube Designs
Time Series Decomposition using Loess and Harmonic Regression
Smoothing methods for nonparametric regression and density estimation
Stochastic Multi-criteria Acceptability Analysis
Multidimensional Scaling in R: SMACOF
Statistical Modeling of Animal Movements
Sparse Multivariate Analysis via Rank Transformation
A set of tools developed by the Foundation SmarterPoland.pl
(Standardised) Major Axis Estimation and Testing Routines
Sequential Monte Carlo (SMC) Algorithm
A simple Monte Carlo optimizer using adaptive coordinate sampling
Smoothed minimax concave penalization (SMCP) method for genome-wide association studies
Data Sets for Statistical Methods in Customer Relationship Management by Kumar and Petersen (2012)
Fit Semiparametric Mixture Cure Models
Utility functions for sequential Monte Carlo
Data to accompany Smithson & Merkle, 2013
Document Similarity
Smoothing-splines Mixed-effects Models
R functions and data from Chapter 5 of 'Statistical Methods for Financial Engineering'
SMfSB 2e: Stochastic Modelling for Systems Biology, second edition
Companion to Statistical Modelling in R
Provides two taxonomic coefficients from E. S. Smirnov "Taxonomic analysis" (1969) book
Smith-Wilson Yield Curve Construction
Statistical Machine Learning
Fitting univariate censored regression model under the scale mixture of normal distributions

SmoothHazard
smoothHR
smoothie
smoothmest
smoothSurv
smoothtail
SMPracticals
SMR
sms
smss
SMVar
sn
sna
snapshot
SNFtool
snow
SnowballC
snowfall
snowFT
snp.plotter
SNPassoc
snpEnrichment
snplist
SNPmaxsel
SNPMClust
snpStatsWriter
SNPtools
SNSequate
SOAR
soc.ca
SocialMediaMineR
SocialNetworks
SOD
SoDA
SODC
softclassval
SoftClustering
softImpute
soil.spec
soilDB
soilphysics
soilprofile
SoilR
soiltexture
soilwater
solaR
SOLOMON

Fitting illness-death model for interval-censored data

Smooth Hazard Ratio Curves taking a Reference Value
Two-dimensional Field Smoothing
Smoothed M-estimators for 1-dimensional location
Survival Regression with Smoothed Error Distribution
Smooth Estimation of GPD Shape Parameter
Practicals for use with Davison (2003) Statistical Models
Studentized Midrange Distribution
Spatial Microsimulation
Datasets for Agresti and Finlay's "Statistical Methods for the Social Sciences"
Structural Model for variances
The skew-normal and skew-t distributions
Tools for Social Network Analysis
Gadget N-body cosmological simulation code snapshot I/O utilities
Similarity Network Fusion
Simple Network of Workstations
Snowball stemmers based on the C libstemmer UTF-8 library
Easier cluster computing (based on snow)
Fault Tolerant Simple Network of Workstations
snp.plotter
SNPs-based whole genome association studies
SNPs enrichment analysis
Tools to create Gene Sets
Maximally selected statistics for SNP data
A bivariate Gaussian genotype clustering and calling algorithm for Illumina microarrays
Flexible writing of snpStats objects to flat files
Accessing, subsetting and plotting mouse SNPs
Standard and Nonstandard Statistical Models and Methods for Test Equating
Memory management in R by delayed assignments
Specific correspondence analysis for the social sciences
A Social Media Search and Analytic Tool
Generates social networks based on distance
SOD for multidimensional scaling
Functions and Examples for "Software for Data Analysis"
Optimal Discriminant Clustering(ODC) and Sparse Optimal Discriminant Clustering(SODC)
Soft classification performance measures
Soft Clustering Algorithms
matrix completion via iterative soft-thresholded svd
Soil spectral file conversion, data exploration and regression functions
Soil Database Interface
Soil Physical Analysis
A package to consistently represent soil properties along a soil profile
Models of Soil Organic Matter Decomposition
Functions for soil texture plot, classification and transformation
soilwater: Implements parametric formulas for soil water retention or conductivity curve
Solar Photovoltaic Systems
Parentage analysis

solr
som
soma
somebm
someKfwer
someMTP
somplot
soobench
SortableHTMLTables
sortinghat
sorvi
sos
sos4R
sotkanet
soundecology
source.gist
sp
sp23design
spa
SPA3G
spaa
space
SPACECAP
spaceExt
spacejam
spacetime
spacodiR
spacom
spam
spaMM
SPAr
sparc
sparcl
sparkTable
sparktex
SPARQL
sparr
sparseBC
sparsediscrim
SparseGrid
sparseHessianFD
sparseLDA
sparseLTSEigen
SparseM
sparseMVN
sparsenet
spartan

General purpose R interface to Solr

Self-Organizing Map
General-purpose optimisation with the Self-Organising Migrating Algorithm
some Brownian motions simulation functions
Controlling the Generalized Familywise Error Rate
Some Multiple Testing Procedures
Visualisation of hexagonal Kohonen maps
Single Objective Optimization Benchmark Functions
Turns a data frame into an HTML file containing a sortable table
sortinghat
Finnish Open Government Data Toolkit
Search contributed R packages, sort by package
An R client for the OGC Sensor Observation Service
Sotkanet R Tools
Soundscape ecology
Read R code from a GitHub Gist
classes and methods for spatial data
Design and Simulation of seamless Phase II-III Clinical Trials
Implements The Sequential Predictions Algorithm
SPA3G: R package for the method of Li and Cui (2012)
SPecies Association Analysis
Sparse PArtial Correlation Estimation
A Program to Estimate Animal Abundance and Density using Bayesian Spatially-Explicit CaptureRecapture Models
Extension of SPACE
Sparse conditional graph estimation with joint additive models
classes and methods for spatio-temporal data
Spatial and Phylogenetic Analysis of Community Diversity
Spatially weighted context data for multilevel modelling
SPArse Matrix
Mixed models, particularly spatial GLMMs
Perform rare variants association analysis based on summation of partition approaches
Semiparametric Generalized Linear Models
Perform sparse hierarchical clustering and sparse k-means clustering
Sparklines and graphical tables for tex and html
Generate LaTeX sparklines in R
SPARQL client
The sparr package: SPAtial Relative Risk
Sparse biclustering of transposable data
Sparse and Regularized Discriminant Analysis
Sparse grid integration in R
Numerical estimation of sparse Hessians using ACM TOMS Algorithm 636
Sparse Discriminant Analysis
RcppEigen back end for sparse least trimmed squares regression
Sparse Linear Algebra
Multivariate normal functions for sparse covariate and precision matrices
Fit sparse linear regression models via nonconvex optimization
Spartan (Simulation Parameter Analysis R Toolkit ApplicatioN)

spatcounts
spate
spatgraphs
spatial
spatial.gev.bma
spatial.tools
spatialCovariance
SpatialEpi
SpatialExtremes
spatialkernel
SpatialNP
spatialprobit
spatialsegregation
spatialTailDep
SpatialTools
SpatialVx
SpatioTemporal
spatstat
spatsurv
spBayes
spBayesSurv
spc
spcadjust
spcosa
spcov
spcr
spd
spdep
spdynmod
spe
speccalt
SPECIES
SpeciesMix
specificity
SpecsVerification
spectral.methods
spectralGP
speedglm
speedRlibs
speedRlibTF
speff2trial
SPEI
sperich
sperrorest
spfrontier
spgrass6
spgwr

Spatial count regression

Spatio-temporal modeling of large data using a spectral SPDE approach
Graphs for spatial point patterns
Functions for Kriging and Point Pattern Analysis
Hierarchical spatial generalized extreme value (GEV) modeling with Bayesian Model Averaging (BMA)
R functions for working with spatial data
Computation of spatial covariance matrices for data on rectangles
Methods and Data for Spatial Epidemiology
Modelling Spatial Extremes
Nonparameteric estimation of spatial segregation in a multivariate point process
Multivariate nonparametric methods based on spatial signs and ranks
Spatial Probit Models
Segregation measures for multitype spatial point patterns
Estimation of spatial tail dependence models
Tools for spatial data analysis
Spatial Forecast Verification
Spatio-Temporal Model Estimation
Spatial Point Pattern analysis, model-fitting, simulation, tests
Bayesian spatial survival analysis with parametric proportional hazards models
Univariate and Multivariate Spatial-temporal Modeling
Spatial Copula Modelling to Bayesian Survival Analysis
Statistical Process Control Collection of Some Useful Functions
Functions for calibrating control charts
Spatial Coverage Sampling and Random Sampling from Compact Geographical Strata
Sparse Estimation of a Covariance Matrix
Sparse principal component regression
Semi Parametric Distribution
Spatial dependence: weighting schemes, statistics and models
Spatio-dynamic wetland plant communities model
Stochastic Proximity Embedding
Alternative spectral clustering, with automatic estimation of k
Statistical package for species richness estimation
Fit Mixtures of Archetype species
Specificity of personality trait-outcome (or trait-trait) associations
Forecast verification routines for the SPECS FP7 project
Singular Spectrum Analysis (SSA) tools for time series analysis
Approximate Gaussian processes using the Fourier basis
Fitting Linear and Generalized Linear Models to large data sets
Package containing the required libraries (jars) for speedR
speedR's table filter library
Semiparametric efficient estimation for a two-sample treatment effect
Calculation of the Standardised Precipitation-Evapotranspiration Index
Auxiliary functions to estimate centers of biodiversity
Spatial Error Estimation and Variable Importance
Spatial Stochastic Frontier models estimation
Interface between GRASS 6+ geographical information system and R
Geographically weighted regression

sphereplot
SphericalCubature
SpherWave
sphet
spi
SPIAssay
spider
spikeslab
spikeSlabGAM
SPIn
splancs
splitstackshape
splm
spls
splus2R
splusTimeDate
splusTimeSeries
spMC
SPmlficmcm
SPMS
spocc
SPODT
sporm
SportsAnalytics
SPOT
sprsmdl
SPSL
spsmooth
spsurvey
spt
spTimer
spuRs
sqldf
sqliter
sqlshare
sqlutils
SQN
SQUAREM
squash
sra
sROC
SRPM
SRRS
ss3sim
ssanv
SSDforR
sse

Spherical plotting
Numerical integration over spheres and balls in n-dimensions; multivariate polar coordinates
Spherical Wavelets and SW-based Spatially Adaptive Methods
Estimation of spatial autoregressive models with and without heteroskedastic innovations
Compute SPI index
A genetic-based assay for the identification of cell lines
Species Identity and Evolution in R
Prediction and variable selection using spike and slab regression
Bayesian variable selection and model choice for generalized additive mixed models
Simulation-efficient Shortest Probability Intervals
Spatial and Space-Time Point Pattern Analysis
Functions to split concatenated data, conveniently stack columns of data.frames, and conveniently
reshape data.frames
Econometric Models for Spatial Panel Data
Sparse Partial Least Squares (SPLS) Regression and Classification
Supplemental S-PLUS functionality in R
Times and Dates from S-PLUS
Time Series from S-PLUS
Continuous Lag Spatial Markov Chains
Semiparametric Maximum likelihood Method for interactions gene-environment in case-mother controlmother designs
Sub-Pathway Mining Software
R interface to many species occurrence data sources
Spatial Oblique Decision Tree
Semiparametric proportional odds rate model
Infrastructure for Sports Analytics
Sequential Parameter Optimization
Sparse modeling toolkit
Site Percolation on Square Lattice (SPSL)
spsmooth: An Extension Package for 'mgcv'
Spatial Survey Design and Analysis
Sierpinski Pedal Triangle
Spatio-Temporal Bayesian Modelling Using R
Functions and Datasets for "Introduction to Scientific Programming and Simulation Using R"
Perform SQL Selects on R Data Frames
Connection wrapper to SQLite databases
API for access to SQLShare database
Utilities for working with SQL files
subset quantile normalization
Squared extrapolation methods for accelerating fixed-point iterations
Color-based plots for multivariate visualization
Selection Response Analysis
Nonparametric Smooth ROC Curves for Continuous Data
Shared Reproducibility Package Management
The Stepwise Response Refinement Screener (SRRS)
Fisheries stock assessment simulation testing with Stock Synthesis
Sample Size Adjusted for Nonadherence or Variability of input parameters
SSD for R to analyze single system data
Sample size estimation

ssfit
ssize.fdr
ssmrob
SSN
sspline
sss
SSsimple
ssvd
ssym
st
stab
stabledist
StableEstim
Stack
stacomirtools
stam
StAMPP
StandardizeText
standGL
STAR
stargazer
STARSEQ
startupmsg
stashR
Stat2Data
StatDA
StatDataML
StateTrace
statfi
StatMatch
statmod
statnet
statnet.common
StatRank
stellaR
Stem
STEPCAM
stepp
stepPlr
stepwise
StereoMorph
stilt
stima
stinepack
stm
StMoSim
stocc

Fitting of parametric models using summary statistics

Sample Size Calculations for Microarray Experiments
Robust estimation and inference in sample selection models
Spatial Modeling on Stream Networks
Smoothing Splines on the Sphere
Tools for importing files in the triple-s .(Standard Survey Structure) format
State space models
Sparse SVD
Fitting Semiparametric Symmetric Regression Models
Shrinkage t Statistic and CAT Score
data analysis of drug stability for shelf life estimation
Stable Distribution Functions
Estimate the 4 parameters of stable law using different methods
Stylized concatenation of data.frames or ffdfs
stacomi ODBC connection class
Spatio-Temporal Analysis and Modelling
Statistical Analysis of Mixed Ploidy Populations
Standardize Text
Standardized Group Lasso
Spike Train Analysis with R
LaTeX/HTML code and ASCII text for well-formatted regression and summary statistics tables
Secondary Trait Association analysis for Rare variants via SEQuence data
Utilities for start-up messages
A Set of Tools for Administering SHared Repositories
Datasets for Stat2
Statistical Analysis for Environmental Data
implementation of the StatDataML proposal
Bayesian Ordinal Analysis for State Trace Designs
statfi R tools
Statistical Matching (aka data fusion)
Statistical Modeling
Software tools for the Statistical Analysis of Network Data
Common R Scripts and Utilities Used by the Statnet Project Software
Statistical Rank Aggregation: Inference, Evaluation, and Visualization
stellar evolution tracks and isochrones
Spatio-temporal models in R
ABC-SMC inference of the STEPCAM model
Subpopulation Treatment Effect Pattern Plot (STEPP)
L2 penalized logistic regression with a stepwise variable selection
Stepwise detection of recombination breakpoints
Stereo Camera Calibration and Reconstruction
Separable Gaussian Process Interpolation (Emulation)
Simultaneous Threshold Interaction Modeling Algorithm
Stineman, a consistently well behaved method of interpolation
Estimation of the Structural Topic Model
Simulate QQ-Norm-Plot
Fit a spatial occupancy model via Gibbs sampling

stochprofML
stochvol
stockPortfolio
stoichcalc
Storm
stosim
STPGA
stpp
stppResid
StrainRanking
strap
stratification
stratigraph
StratSel
straweib
stream
StreamingLm
StreamMetabolism
streamMOA
streamR
stremo
stressr
StressStrength
stringdist
stringi
stringr
strucchange
structSSI
strum
strvalidator
stsm
stsm.class
StVAR
stylo
SubCultCon
SubLasso
subplex
subselect
subsemble
subtype
sudoku
SUE
sugaR
Sunder
SunterSampling
supclust
superbiclust

Stochastic Profiling using Maximum Likelihood Estimation

Efficient Bayesian Inference for Stochastic Volatility (SV) Models
Build stock models and analyze stock portfolios
R Functions for Solving Stoichiometric Equations
Write Storm Bolts in R using the Storm Multi-Language Protocol
Stochastic Simulator for Reliability Modeling of Repairable Systems
Selection of Training Populations by Genetic Algorithm
Space-Time Point Pattern simulation, visualisation and analysis
Perform residual analysis on space-time point process models
Ranking of pathogen strains
Stratigraphic Tree Analysis for Palaeontology
Univariate Stratification of Survey Populations
Toolkit for the plotting and analysis of stratigraphic and palaeontological data
Strategic Selection Estimator
Stratified Weibull Regression Model
Infrastructure for Data Stream Mining
What the package does (short line)
Stream Metabolism-A package for calculating single station metabolism from diurnal Oxygen curves
stream - Interface to MOA Algorithms
Access to Twitter Streaming API via R
Functions to help the process of learning structural equation modelling
Fetch and plot financial stress index and component data
Computation and estimation of reliability of stress-strength models
Approximate string matching and string distance functions
Character string processing facilities
Make it easier to work with strings
Testing, Monitoring, and Dating Structural Changes
Multiple Testing for Hypotheses with Hierarchical or Group Structure
STRUctural Modeling of Latent Variables for General Pedigree
Internal validation of forensic STR kits made easy with strvalidator
Structural Time Series Models
Class and Methods for Structural Time Series Models
Student's t Vector Autoregression (StVAR)
Functions for a variety of stylometric analyses
Maximum-Likelihood Cultural Consensus Analysis with Sub-Cultures
Gene selection using Lasso for Microarray data with user-defined genes fixed in model
Subplex optimization algorithm
Selecting variable subsets
An Ensemble Method for Combining Subset-Specific Algorithm Fits
Cluster analysis to find molecular subtypes and their assessment
Sudoku Puzzle Generator and Solver
Subsampling method
Plots to help optimising diabetes therapy
Quantification of the effect of geographic versus environmental isolation on genetic differentiation
Sunter's sampling design
Supervised Clustering of Predictor Variables such as Genes
Generating Robust Biclusters from a Bicluster Set (Ensemble Biclustering)

superdiag
SuperLearner
superMDS
superpc
SuppDists
support.BWS
support.CEs
surface
Surrogate
suRtex
surv2sampleComp
survAUC
survBayes
survC1
surveillance
survexp.fr
survey
surveydata
Survgini
survIDINRI
survival
survivalMPL
survivalROC
survJamda
survJamda.data
survMisc
survPresmooth
survrec
SurvRegCensCov
survsim
survSNP
svapls
svcm
svd
svDialogs
svDialogstcltk
svdvisual
svGUI
svHttp
svIDE
svKomodo
svMisc
SVMMaj
svmpath
svSocket
svSweave
svTools

R Code for Testing Markov Chain Nonconvergence

Super Learner Prediction
Implements the supervised multidimensional scaling (superMDS) proposal of Witten and Tibshirani
(2011)
Supervised principal components
Supplementary distributions
Basic functions for supporting an implementation of best-worst scaling
Basic functions for supporting an implementation of choice experiments
Fitting Hansen Models to Investigate Convergent Evolution
Evaluation of surrogate endpoints in clinical trials
LaTeX descriptive statistic reporting for survey data
Inference for model-free between-group parameters for censored survival data
Estimators of prediction accuracy for time-to-event data
Fits a proportional hazards model to time to event data by a Bayesian approach
C-statistics for risk prediction models with censored survival data
Temporal and Spatio-Temporal Modeling and Monitoring of Epidemic Phenomena
Relative survival, AER and SMR based on French death rates
analysis of complex survey samples
Tools to manipulate survey data
The Gini concentration test for survival data
IDI and NRI for comparing competing risk prediction models with censored survival data
Survival Analysis
Penalised Maximum Likelihood for Survival Analysis Models
Time-dependent ROC curve estimation from censored survival data
Survival prediction by joint analysis of microarray gene expression data
survJamda.data
Miscellaneous functions for survival data
Presmoothed Estimation in Survival Analysis
Survival analysis for recurrent event data
Weibull Regression for a Right-Censored Endpoint with Interval-Censored Covariate
Simulation of simple and complex survival data
Power and Sample Size Calculations for SNP Association Studies with Censored Time to Event
Outcomes
Surrogate variable analysis using partial least squares in a gene expression study
2d and 3d Space-Varying Coefficient Models
Interfaces to various state-of-art SVD and eigensolvers
SciViews GUI API - Dialog boxes
SciViews GUI API - Dialog boxes using Tcl/Tk
SVD visualization tools
SciViews GUI API - Functions to manage GUIs
SciViews GUI API - R HTTP server
SciViews GUI API - IDE and code editor functions
SciViews GUI API - Functions to interface with Komodo Edit/IDE
SciViews GUI API - Miscellaneous functions
SVMMaj algorithm
svmpath: the SVM Path algorithm
SciViews GUI API - R Socket Server
SciViews GUI API - Sweave functions
SciViews GUI API - Tools (wrapper for packages tools and codetools)

svUnit
svWidgets
SvyNom
svyPVpack
swamp
SWATmodel
SweaveListingUtils
sweSCB
swirl
SwissAir
switchnpreg
sybil
sybilccFBA
sybilcycleFreeFlux
sybilDynFBA
sybilEFBA
sybilSBML
symbolicDA
symbols
symmoments
synbreed
synbreedData
synchronicity
synchrony
SynchWave
SYNCSA
SynergizeR
SyNet
synlik
Synth
sysfonts
systemfit
tab
Table1Heatmap
table1xls
tableone
tableplot
tables
TableToLongForm
tabplot
tabplotd3
tabuSearch
TAM
TANOVA
TaoTeProgramming
TapeR
TAQMNGR

SciViews GUI API - Unit testing

SciViews GUI API - Widgets & Windows
Nomograms for Right-Censored Outcomes from Survey Designs
A package for complex surveys including plausible values
Visualization, analysis and adjustment of high-dimensional data in respect to sample annotations
A multi-OS implementation of the TAMU SWAT model
Utilities for Sweave together with TeX listings package
An R interface to the web API of Statistics Sweden
Statistics with Interactive R Learning
Air Quality Data of Switzerland for one year in 30 min Resolution
Switching nonparametric regression models for a single curve and functional data
sybil - Efficient Constrained Based Modelling in R
Cost Constrained FLux Balance Analysis: MetabOlic Modeling with ENzyme kineTics (MOMENT)
cycle-Free Flux balance analysis: Efficient removal of thermodynamically infeasible cycles from
metabolic flux distributions
Dynamic FBA : dynamic flux balance analysis
Using gene expression data to improve flux balance analysis predictions
SBML Integration in Package sybil
Analysis of symbolic data
Symbol plots
Symbolic central moments of the multivariate normal distribution
Framework for the analysis of genomic prediction data using R
Data for the synbreed package
Boost mutex functionality for R
Methods for computing spatial, temporal, and spatiotemporal statistics
Synchrosqueezed Wavelet Transform
SYNCSA - Analysis of functional and phylogenetic patterns in metacommunities
Interface to The Synergizer service for translating between sets of biological identifiers
Inference and Analysis of Sympatry Networks
Synthetic Likelihood methods for intractable likelihoods
Synthetic Control Group Method for Comparative Case Studies
Loading system fonts into R
Estimating Systems of Simultaneous Equations
Functions for creating summary tables for statistical reports
Table 1 Heatmap
Produces summary tables and exports them to multi-tab spreadsheet format (.xls or .xlsx)
Create "Table 1" to describe baseline characteristics
Represents tables as semi-graphic displays
Formula-driven table generation
TableToLongForm
Tableplot, a visualization of large datasets
Tabplotd3, interactive inspection of large data
R based tabu search algorithm
Test Analysis Modules
Time Course Analysis of Variance for Microarray
Illustrations from Tao Te Programming
Flexible tree taper curves based on semiparametric mixed models
Manage tick-by-tick transaction data

taRifx
taRifx.geo
tau
TauP.R
tawny
tawny.types
taxize
Taxonstand
tbart
tbdiag
TBEST
TBSSurvival
TcGSA
tcltk2
TDD
tdm
TDMR
tdthap
TeachingDemos
TeachingSampling
TeachNet
TED
teigen
tempdisagg
tensor
tensorA
TEQR
TERAplusB
tergm
termstrc
ternvis
TESS
tester
testit
TestScorer
TestSurvRec
testthat
texmex
TExPosition
texreg
textcat
textir
textometry
TFDEA
tfer
TFMPvalue
tfplot

Collection of utility and convenience functions

Collection of various spatial functions
Text Analysis Utilities
Earthquake Traveltime Calculations for 1-D Earth Models
Provides various portfolio optimization strategies including random matrix theory and shrinkage
estimators
Common types for tawny
Taxonomic information from around the web
Taxonomic standardization of plant species names
Teitz and Bart p-median algorithm
Functions for tuberculosis diagnostics research
Tree Branches Evaluated Statistically for Tightness
TBS Model R package
Time-course Gene Set Analysis
Tcl/Tk Additions
Time-Domain Deconvolution of Seismometer Response
A Tool for Therapeutic Drug Monitoring (TDM)
Tuned Data Mining in R
TDT tests for extended haplotypes
Demonstrations for teaching and learning
Selection of samples and parameter estimation in finite population
Fits neural networks to learn about back propagation
Turbulence time series Event Detection and classification
Model-based clustering and classification with the multivariate t-distribution
Methods for Temporal Disaggregation and Interpolation of TimeSeries
Tensor product of arrays
Advanced tensors arithmetic with named indices
Target Equivalence Range Design
Test for A+B Traditional Escalation Rule
Fit, Simulate and Diagnose Models for Network Evolution based on Exponential-Family Random Graph
Models
Zero-coupon Yield Curve Estimation
Visualisation, verification and calibration of ternary probabilistic forecasts
Fast simulation of reconstructed phylogenetic trees under time-dependent birth-death processes
Tests and checks characteristics of R objects
A simple package for testing R packages
GUI for entering test items and obtaining raw and transformed scores
Statistical tests to compare two survival curves with recurrent events
Testthat code. Tools to make testing fun :)
Statistical modelling of extreme values
Two-table ExPosition
Conversion of R regression output to LaTeX or HTML tables
N-Gram Based Text Categorization
Inverse Regression for Text Analysis
Textual Data Analysis Package used by the TXM Software
TFDEA (Technology Forecasting using Data Envelopment Analysis) functions
Forensic Glass Transfer Probabilities
Efficient and accurate P-value computation for Position Weight Matrices
Time Frame User Utilities

tframe
tframePlus
TFX
tgp
tgram
TH.data
thgenetics
Thinknum
threeboost
ThreeWay
threg
ThresholdROC
tibbrConnector
tictoc
TiddlyWikiR
Tides
tiff
tiger
tigerstats
tightClust
tikzDevice
tileHMM
TilePlot
tilting
timeDate
timeit
timeline
TimeMachine
timeordered
TimeProjection
timereg
timeROC
timesboot
timeSeries
timetools
TimeWarp
TIMP
timsac
Tinflex
TInPosition
tipom
tis
titan
tkrgl
tkrplot
tlemix
tlmec

Time Frame coding kernel

Time Frame coding kernel extensions
R API to TrueFX(tm)
Bayesian treed Gaussian process models
Functions to compute and plot tracheidograms
TH's Data Archive
Genetic Rare Variants Tests
Thinknum Data Connection
Thresholded variable selection and prediction based on estimating equations
Three-way component analysis
Threshold Regression
Optimum threshold estimation based on cost function in a two and three state setting
R interface to tibbr
Functions for timing R scripts, as well as implementations of Stack and List structures
Create dynamic reports using a TiddlyWiki template
Tides
Read and write TIFF images
TIme series of Grouped ERrors
R for Elementary Statistics
Tight Clustering
R Graphics Output in LaTeX Format
Hidden Markov Models for ChIP-on-Chip Analysis
Characterization of functional genes in complex microbial communities using tiling DNA microarrays
Variable selection via Tilted Correlation Screening algorithm
Rmetrics - Chronological and Calendar Objects
Easy profiling of R functions
Timelines for a Grammar of Graphics
Time Machine
Time-ordered and time-aggregated network analyses
Time Projections
Flexible regression models for survival data
Time-dependent ROC curve and AUC for censored survival data
Bootstrap computations for time series objects
Rmetrics - Financial Time Series Objects
provides objects and tools to manipulate irregular heterogeneous time data and subtime data
Date calculations and manipulation
a problem solving environment for fitting separable nonlinear models in physics and chemistry
applications
TIMe Series Analysis and Control package
Tinflex - Universal non-uniform random number generator
Inference tests for TExPosition
Automated measure-based classification for flint tools
Time Indexes and Time Indexed Series
Titration analysis for mass spectrometry data
TK widget tools for rgl package
TK Rplot
Trimmed Maximum Likelihood Estimation
Linear Student-t Mixed-Effects Models with Censored Data

tlnise
tm
tm.plugin.alceste
tm.plugin.dc
tm.plugin.europresse
tm.plugin.factiva
tm.plugin.lexisnexis
tm.plugin.mail
tm.plugin.webmining
tmle
tmle.npvi
tmvtnorm
tnet
toaster
tolerance
topicmodels
TopKLists
topmodel
topologyGSA
topsis
tosls
tourr
tourrGui
tpe
TPmsm
tpr
track
trackObjs
TrackReconstruction
tractor.base
traitr
TraMineR
TraMineRextras
TRAMPR
translate
transmission
transnet
transport
trapezoid
TreatmentSelection
tree
treebase
treecm
treelet
treemap
TreePar
TreeSim

Two-level normal independent sampling estimation

Text Mining Package
Import texts from files in the Alceste format using the tm text mining framework
Text Mining Distributed Corpus Plug-In
Import articles from Europresse using the tm text mining framework
Import articles from Factiva using the tm text mining framework
Import articles from LexisNexis using the tm text mining framework
Text Mining E-Mail Plug-In
Retrieve structured, textual data from various web sources
Targeted Maximum Likelihood Estimation
Targeted Minimum Loss Estimation (TMLE) of a NP variable importance of a continuous exposure
Truncated Multivariate Normal and Student t Distribution
tnet: Software for Analysis of Weighted, Two-mode, and Longitudinal networks
analytics and visualization with Aster Database
Functions for calculating tolerance intervals
Topic models
Inference, aggregation and visualization for top-k ranked lists
Implementation of the hydrological model TOPMODEL in R
Gene Set Analysis Exploiting Pathway Topology
TOPSIS method for multiple-criteria decision making (MCDM)
Instrumental Variables Two Stage Least Squares estimation
Implement tour methods in pure R code
A Tour GUI using gWidgets
Tree preserving embedding
Estimation of transitions probabilities in multistate models
Temporal Process Regression
Track Objects
Track Objects (last release - package name changed to 'track')
Reconstruct animal tracks from magnetometer, accelerometer, depth and optional speed data
A package for reading, manipulating and visualising magnetic resonance images
An interface for creating GUIs modeled in part after traits UI module for python
Trajectory miner: a toolbox for exploring and rendering sequence data
Extras for use with the TraMineR package
TRFLP Analysis and Matching Package for R
Bindings for the Google Translate API v2
Continuous time infectious disease models on individual data
Conducts transmission modeling on a bayesian network
Optimal transport in various forms
The Trapezoidal Distribution
Evaluate Treatment Selection Biomarkers
Classification and regression trees
An R package for discovery, access and manipulation of online phylogenies
Centre of mass assessment and consolidation of trees
Treelets - an adaptive multi-scale basis for high-dimensional, sparse and unordered data
Treemap visualization
Estimating birth and death rates based on phylogenies
Simulating trees under the birth-death model

TreeSimGM
treethresh
TrialSize
TRIANG
TRIANGG
triangle
trifield
TriMatch
trimcluster
trioGxE
trip
tripack
tripEstimation
TripleR
trueskill
truncdist
truncgof
truncnorm
truncreg
truncSP
trust
trustOptim
TSA
TSAgg
tsbridge
tsbugs
TSclust
TScompare
TSdata
TSdbi
TSdist
tsDyn
TSEN
tseries
tseriesChaos
tsfa
TSfame
TSgetSymbol
TShistQuote
TSHRC
tsintermittent
TSjson
tslars
tsModel
TSMySQL
tsne
TSodbc

Simulating Phylogenetic Trees under a General Model

Methods for Tree-based Local Adaptive Thresholding
R functions in Chapter 3,4,6,7,9,10,11,12,14,15
Symmetric discrete triangular distributions
General discrete triangular distribution
Provides the standard distribution functions for the triangle distribution
Some basic facilities for ternary fields and plots
Propensity Score Matching of Non-Binary Treatments
Cluster analysis with trimming
A data smoothing approach to explore and test gene-environment interaction in case-parent trio data
Spatial analysis of animal track data
Triangulation of irregularly spaced data
Metropolis sampler and supporting functions for estimating animal movement from archival tags and
satellite fixes
Social Relation Model (SRM) analyses for single or multiple round-robin groups
Implementation the TrueSkill algorithm in R
Truncated Random Variables
GoF tests allowing for left truncated data
Truncated normal distribution
Truncated Gaussian Regression Models
Semi-parametric estimators of truncated regression models
Trust Region Optimization
Trust region nonlinear optimization, efficient for sparse Hessians
Time Series Analysis
Time series Aggregation
Calculate normalising constants for Bayesian time series models
Create time series BUGS models
Time series clustering utilities
TSdbi Comparison
TSdbi Illustration
TSdbi (Time Series Database Interface)
Distance Measures for Time Series data
Nonlinear time series models with regime switching
Two-dimensional peak sentinel tool for GC x GC-HRTOFMS
Time series analysis and computational finance
Analysis of nonlinear time series
Time Series Factor Analysis
TSdbi extensions for fame
TSdbi extension to connect with getSymbols
TSdbi extensions for get.hist.quote
Two Stage Hazard Rate Comparison
Intermittent Time Series Forecasting
TSdbi extension for importing time series from web sources via JSON
Least angle regression for time series analysis
Time Series Modeling for Air Pollution and Health
TSdbi extensions for MySQL
T-distributed Stochastic Neighbor Embedding for R (t-SNE)
TSdbi extensions for ODBC

tsoutliers
TSP
Tsphere
tspmeta
TSPostgreSQL
TSsql
TSSQLite
TSTutorial
TSxls
TSzip
TTAinterfaceTrendAnaly
sis
tth
TTR
ttScreening
ttutils
ttwa
TukeyC
TunePareto
tuneR
turboEM
turfR
turner
TurtleGraphics
TUWmodel
tvm
twang
tweedie
twiddler
twitteR
TwoCop
twoStageGwasPower
twostageTE
TwoStepCLogit
txtplot
UBCRM
ucbthesis
ucminf
udunits2
ump
unbalanced
unbalhaar
Unicode
uniCox
uniReg
unmarked
untb
upclass

Automatic Detection of Outliers in Time Series

Traveling Salesperson Problem (TSP)
Transposable Sphering for Large-Scale Inference with Correlated Data
Instance feature calculation and evolutionary instance generation for the traveling salesman problem
TSdbi extensions for PostgreSQL
Generic SQL helper functions for TSdbi SQL plugins
TSdbi extensions for SQLite
Fitting and Predict Time Series Interactive Laboratory
TSdbi extension to connect to spreadsheets
TSdbi extension to connect to zip files
Temporal Trend Analysis Graphical Interface
TeX to HTML/MathML Translators tth/ttm
Technical Trading Rules
Genome-wide DNA methylation sites screening by use of training and testing samples
Utility functions
Travel To Work Area
Conventional Tukey Test
Multi-objective parameter tuning for classifiers
Analysis of music and speech
A Suite of Convergence Acceleration Schemes for EM and MM algorithms
TURF Analysis for R
Turn vectors and lists of vectors into indexed structures
Turtle graphics in R
Lumped hydrological model developed at the Vienna University of Technology for education purposes
Time Value of Money Functions
Toolkit for Weighting and Analysis of Nonequivalent Groups
Tweedie exponential family models
Interactive manipulation of R expressions
R based Twitter client
Nonparametric test of equality between two copulas
Compute thresholds and power for two-stage gwas
Two-Stage Threshold Estimation
Conditional logistic regression: A two-step estimation method
Text based plots
UBCRM is a R package containing functions to simulate and conduct dose escalation phase I studies
UC Berkeley graduate division thesis template
General-purpose unconstrained non-linear optimization
udunits-2 bindings for R
Uniformly Most Powerful Tests
The package implements different data-driven method for unbalanced datasets
Function estimation via Unbalanced Haar wavelets
Unicode data and utilities
Univarate shrinkage prediction in the Cox model
Unimodal penalized spline regression using B-splines
Models for Data from Unmarked Animals
ecological drift under the UNTB
Updated Classification Methods using Unlabelled Data

uplift
urca
UScancer
UScensus2000blkgrp
UScensus2000cdp
UScensus2000tract
UScensus2010
usdm
useful
userfriendlyscience
UsingR
usl
ustyc
utility
uuid
UWHAM
vacem
VAR.etp
varbvs
varComp
varcompci
vardiag
vardpoor
VarEff
VaRES
VariABEL
VarianceGamma
vars
varSelectIP
varSelRF
VarSwapPrice
vbdm
VBLPCM
VBmix
vbsr
vcd
vcdExtra
vcf2geno
VDA
vdg
Vdgraph
VdgRsm
vec2dtransf
vecsets
VecStatGraphs2D
VecStatGraphs3D
vectoptim

Uplift Modeling
Unit root and cointegration tests for time series data
Create US cancer datasets from SEER, IARC, and US Census data
US Census 2000 Block Group Shapefiles and Additional Demographic Data
US Census 2000 Designated Places Shapefiles and Additional Demographic Data
US Census 2000 Tract Level Shapefiles and Additional Demographic Data
US Census 2010 Suite of R Packages
Uncertainty analysis for species distribution models
A collection of handy, useful functions
Quantitative analysis made accessible
Data sets, etc. for the text "Using R for Introductory Statistics", second edition
Analyze system scalability with the Universal Scalability Law
Fetch US Treasury yield curve data
Construct, Evaluate and Plot Value and Utility Functions
Tools for generating and handling of UUIDs
Unbinned weighted histogram analysis method (UWHAM)
Vaccination Activities Coverage Estimation Model
VAR modelling: estimation, testing, and prediction
Variational inference for Bayesian variable selection
Variance component models
VARCOMPCI: A Package for Computation of Confidence Intervals for Variance Components of Mixed
Models in R
A package for variogram diagnostics
Variance estimation for sample surveys by the ultimate cluster method
Variation of effective population size
Computes value at risk and expected shortfall for over 100 parametric distributions
Testing of genotypic variance heterogeneity to detect potentially interacting SNP
The Variance Gamma Distribution
VAR Modelling
Objective Bayes Model Selection
Variable selection using random forests
Pricing a variance swap on an equity index
Variational Bayes Discrete Mixture Model
Variational Bayes Latent Position Cluster Model for networks
Variational Bayesian mixture models
Variational Bayes Spike Regression Regularized Linear Models
Visualizing Categorical Data
vcd extensions and additions
Efficiently Read Variant Call Format (VCF) into R
VDA
Variance Dispersion Graphs and Fraction of Design Space Plots
This package creates variance dispersion graphs for response surface designs
Variance Dispersion and Fraction of Design Space Plots
2D Cartesian Coordinate Transformation
like base::sets tools but keeps duplicate elements
Vector analysis using graphical and analytical methods in 2D
Vector analysis using graphical and analytical methods in 3D
Vectorized optimization methods

vegan
vegclust
vegdata
vegetarian
VennDiagram
venneuler
verification
VGAM
VGAMdata
VHDClassification
VideoComparison
VIF
VIM
VIMGUI
VineCopula
vines
violinmplot
vioplot
viopoints
visreg
visualFields
visualizationTools
visualize
VisuClust
vitality
VizOR
VLF
VLMC
VNM
Voss
vowels
vows
VoxR
VPdtw
vrmlgen
vrtest
vscc
VSURF
vwr
W2CWM2C
waffect
waldwolf
walkscoreAPI
WARN
wasim
waterData

Community Ecology Package

Fuzzy clustering of vegetation data
Functions to access vegetation databases (Turboveg) and prepare vegetation data especially its
taxonomy for analysis
Jost Diversity Measures for Community Data
Generate high-resolution Venn and Euler plots
Venn and Euler Diagrams
Weather Forecast Verification Utilities
Vector Generalized Linear and Additive Models
Data supporting the VGAM package
Discrimination/Classification in very high dimension with linear and quadratic rules
Video comparison tool
VIF Regression: A Fast Regression Algorithm For Large Data
Visualization and Imputation of Missing Values
Visualization and Imputation of Missing Values
Statistical inference of vine copulas
Multivariate Dependence Modeling with Vines
Combination of violin plot with mean and standard deviation
Violin plot
1-D Scatter Plots with Jitter Using Kernel Density Estimates
Visualization of regression models
Statistical methods for visual fields
Package contains a few functions to visualize statistical circumstances
Graph Probability Distributions with User Supplied Parameters and Stats
VisuClust
vitality: Fitting routines for the Vitality family of mortality models
Graphical visualization tools for complex observational data with focus on health sciences (VizOR)
Frequency Matrix Approach for Assessing Very Low Frequency Variants in Sequence Records
VLMC Variable Length Markov Chains
Multiple objective optimal design
Generic Voss algorithm (random sequential additions)
Vowel Manipulation, Normalization, and Plotting
Voxelwise semiparametrics
Metrics extraction of trees from T-LiDAR data
Variable Penalty Dynamic Time Warping
Generate 3D visualizations for data exploration on the web
Variance Ratio tests and other tests for Martingale Difference Hypothesis
Variable selection for clustering and classification
Variable Selection Using Random Forests
Useful functions for visual word recognition research
The W2CWM2C package is a set of functions to produce new graphical tools for wavelet correlation
(bivariate and multivariate cases) using some routines from the waveslim and wavemulcor packages
A package to simulate constrained phenotypes under a disease model H1
Wald-Wolfowitz trend test
Walk Score and Transit Score API
Weaning Age Reconstruction with Nitrogen isotope analysis
Visualisation and analysis of output files of the hydrological model WASIM
An R Package for Retrieval, Analysis, and Anomaly Calculation of Daily Hydrologic Time Series Data

waterfall
Wats
waveband
WaveCD
waved
wavelets
wavemulcor
waveslim
wavethresh
wbs
wccsom
WCQ
WDI
weatherData
weathermetrics
WebDevelopR
webvis
WeightedCluster
weightedKmeans
WeightedPortTest
weightedScores
weights
weirs
wesanderson
wfe
wgaim
WGCNA
wgsea
WhatIf
whisker
WhopGenome
widals
WideLM
widenet
wikibooks
WikipediR
WilcoxCV
wild1
witness
wle
WMCapacity
WMDB
wmtsa
wnominate
wombsoft
wordcloud
wordmatch

Waterfall Charts in R
Wrap Around Time Series graphics
Computes credible intervals for Bayesian wavelet shrinkage
Wavelet change point detection for array CGH data
Wavelet Deconvolution
A package of functions for computing wavelet filters, wavelet transforms and multiresolution analyses
Wavelet routine for multiple correlation
Basic wavelet routines for one-, two- and three-dimensional signal processing
Wavelets statistics and transforms
Wild Binary Segmentation for multiple change-point detection
SOM networks for comparing patterns with peak shifts
Detection of QTL effects in a small mapping population
World Development Indicators (World Bank)
Get Weather Data from the Web
Functions to convert between weather metrics
Website development package for R
Create graphics for the web from R
Clustering of Weighted Data
Weighted KMeans Clustering
Weighted Portmanteau Tests for Time Series Goodness-of-fit
Weighted scores method for regression with dependent data
Weighting and Weighted Statistics
A Hydraulics Package to Compute Open-Channel Flow over Weirs
A Wes Anderson Palette Generator
Weighted Linear Fixed Effects Regression Models for Causal Inference
Whole Genome Average Interval Mapping for QTL detection using mixed models
Weighted Correlation Network Analysis
Wilcoxon based gene set enrichment analysis
WhatIf: Software for Evaluating Counterfactuals
{{mustache}} for R, logicless templating
High-speed processing of whole-genome VCF-format variation data, FASTA-format sequence data and
several alignments formats
Weighting by Inverse Distance with Adaptive Least Squares for Massive Space-Time Data
Fitting many skinny linear models to a single data set
Penalized Regression with Polynomial Basis Expansions
Functions and datasets of the german WikiBook "GNU R"
A MediaWiki API wrapper
Wilcoxon-based variable selection in cross-validation
R Tools for Wildlife Research and Management
This package fits eyewitness data using Clark's (2003) WITNESS model
Weighted Likelihood Estimation
GUI implementing Bayesian working memory models
Discriminant Analysis Methods by Weight Mahalanobis Distance and bayes
Wavelet Methods for Time Series Analysis
WNOMINATE Roll Call Analysis Software
Wombling Computation
Word Clouds
Matches words in one file with words in another file

wordnet
WordPools
wpp2008
wpp2010
wpp2012
wppExplorer
wq
WrightMap
write.snns
WriteXLS
wrspathrow
wrspathrowData
wskm
wsrf
wSVM
wtcrsk
WWGbook
x12
x12GUI
XBRL
xergm
xgobi
xgrid
xhmmScripts
XiMpLe
xkcd
XLConnect
xlsx
xlsxjars
Xmisc
XML
XML2R
XNomial
xoi
xpose4
xtable
xtermStyle
xts
yacca
yaImpute
YaleToolkit
yaml
ycinterextra
yhat
yhatr
YieldCurve
ykmeans

WordNet Interface
Classical word pools used in studies of learning and memory
World Population Prospects 2008
World Population Prospects 2010
World Population Prospects 2012
Explorer of World Population Prospects
Exploring water quality monitoring data
Wright Map: IRT item-person map with ConQuest integration
Function for exporting data to SNNS pattern files
Cross-platform Perl based R function to create Excel 2003 (XLS) and Excel 2007 (XLSX) files
Functions for working with Worldwide Reference System (WRS)
Data used by the wrspathrow package
Weighted k-means Clustering
Weighted Subspace Random Forest
Weighted SVM with boosting algorithm for improving accuracy
Competing risks regression models with covariate-adjusted censoring weight
Functions and datasets for WWGbook
x12 - wrapper function and structure for batch processing
X12 - Graphical User Interface
Extraction of business financial information from XBRL documents
Extensions for Exponential Random Graph Models (ERGM)
Interface to the XGobi and XGvis programs for graphical data analysis
Access Apple Xgrid using R
XHMM R scripts
A simple XML tree parser and generator
Plotting ggplot2 graphics in a XKCD style
Excel Connector for R
Read, write, format Excel 2007 and Excel 97/2000/XP/2003 files
Package required POI jars for the xlsx package
Xiaobei's miscellaneous classes and functions
Tools for parsing and generating XML within R and S-Plus
EasieR XML data collection
Exact Goodness-Of-Fit Test For Multinomial Data With Fixed Probabilities
Tools for analyzing crossover interference
Xpose 4
Export tables to LaTeX or HTML
Basic text formatting using xterm escape sequences
eXtensible Time Series
Yet Another Canonical Correlation Analysis Package
yaImpute: An R Package for k-NN Imputation
Data exploration tools from Yale University
Methods to convert R data to YAML and back
Yield curve or zero-coupon prices interpolation and extrapolation
Interpreting Regression Effects
R binder for the Yhat API
Modelling and estimation of the yield curve
K-means using a target variable

YourCast
YplantQMC
YPmodel
YuGene
yuima
zCompositions
ZeBook
Zelig
ZeligChoice
ZeligGAM
ZeligMultilevel
zendeskR
zic
ZIM
zipcode
zipfR
zoeppritz

Forecasting age-sex-country-cause mortality rates

Plant architectural analysis with Yplant and QuasiMC
The Short-term and Long-term Hazard Ratio Model for Survival Data
YuGene: A simple approach to scale gene expression data derived from different platforms for
integrated analyses
The YUIMA Project package for SDEs
Replacement of zeros and nondetects in compositional data sets
ZeBook Working with dynamic models for agriculture and environment
Everyone's Statistical Software
Zelig Choice Models
General Additive Models for Zelig
Multilevel Regressions for Zelig
Zendesk API Wrapper
Bayesian Inference for Zero-Inflated Count Models
Zero-Inflated Models for Count Time Series with Excess Zeros
U.S. ZIP Code database for geocoding
Statistical models for word frequency distributions
Zoeppritz Equations