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Package Description
A3 A3: Accurate, Adaptable, and Accessible Error Metrics for Predictive Models
aaMI Mutual information for protein sequence alignments
abc Tools for Approximate Bayesian Computation (ABC)
abcdeFBA ABCDE_FBA: A-Biologist-Can-Do-Everything of Flux Balance Analysis with this package.
ABCExtremes ABC Extremes
ABCoptim
ABCp2 Approximate Bayesian Computational model for estimating P2
abctools Tools for ABC analyses
abd The Analysis of Biological Data
abf2 Load Axon ABF2 files (currently only in gap-free recording mode)
abind Combine multi-dimensional arrays
aBioMarVsuit A Biomarker Validation Suit for predicting Survival using gene signature.
abn Data Modelling with Additive Bayesian Networks
abundant Abundant regression and high-dimensional principal fitted components
accelerometry Functions for processing uniaxial minute-to-minute accelerometer data
AcceptanceSampling Creation and evaluation of Acceptance Sampling Plans
ACCLMA ACC & LMA Graph Plotting
accrued
accuracy Tools for testing and improving accuracy of statistical results.
ACD Categorical data analisys with complete or missing responses
Ace
acepack ace() and avas() for selecting regression transformations
acer The ACER Method for Extreme Value Estimation
aCGH.Spline Robust spline interpolation for dual color array comparative genomic hybridisation data
ACNE Affymetrix SNP probe-summarization using non-negative matrix factorization
acopula Modelling dependence with multivariate Archimax (or any user-defined continuous) copulas.
aCRM Convenience functions for analytical Customer Relationship Management
acs
ACTCD
Actigraphy Actigraphy Data Analysis
actuar Actuarial functions
ActuDistns Functions for actuarial scientists
ada ada: an R package for stochastic boosting
adabag Applies multiclass AdaBoost.M1, AdaBoost-SAMME and Bagging
ADaCGH Analysis of data from aCGH experiments
adagio
adapt adapt -- multidimensional numerical integration
AdaptFit Adaptive Semiparametic Regression
AdaptFitOS Adaptive Semiparametric Regression with Simultaneous Confidence Bands
AdaptiveSparsity
adaptivetau Tau-leaping stochastic simulation
adaptMCMC Implementation of a generic adaptive Monte Carlo Markov Chain sampler
adaptsmoFMRI Adaptive Smoothing of FMRI Data
adaptTest Adaptive two-stage tests
ade4 Analysis of Ecological Data : Exploratory and Euclidean methods in Environmental sciences
ade4TkGUI ade4 Tcl/Tk Graphical User Interface
adegenet adegenet: an R package for the exploratory analysis of genetic and genomic data.
adehabitat Analysis of habitat selection by animals
adehabitatHR Home range Estimation
adehabitatHS Analysis of habitat selection by animals
adehabitatLT Analysis of animal movements
adehabitatMA Tools to Deal with Raster Maps
adephylo adephylo: exploratory analyses for the phylogenetic comparative method.
AdequacyModel Adequacy of probabilistic models and generation of pseudo-random numbers.
ADGofTest Anderson-Darling GoF test
adimpro Adaptive Smoothing of Digital Images
adk Anderson-Darling K-Sample Test and Combinations of Such Tests
adlift An adaptive lifting scheme algorithm
ADM3 An Interpretation of the ADM method - automated detection algorithm.
AdMit Adaptive Mixture of Student-t distributions
ads Spatial point patterns analysis
Aelasticnet Bayesian Adaptive Elastic-Net for high dimensional sparse quantile regression models
AER Applied Econometrics with R
afc Calculate afc
afex Analysis of Factorial Experiments
AFLPsim Hybrid simulation and genome scan for dominant markers
afmtools Estimation, Diagnostic and Forecasting Functions for ARFIMA models
aftgee Accelerated Failure Time Model with Generalized Estimating Equations
agce analysis of growth curve experiments
AGD Analysis of Growth Data
ageprior Prior distributions for molecular dating
aggrisk Estimate individual level risk using individual case data and spatially aggregated control data
agilp Extracting and preprocessing Agilent express arrays
agop Aggregation Operators and Preordered Sets
agRee Various Methods for Measuring Agreement.
agreement Statistical Tools for Measuring Agreement
agricolae Statistical Procedures for Agricultural Research
agridat Agricultural datasets
agrmt Calculate agreement
AGSDest Estimation in adaptive group sequential trials
agsemisc Miscellaneous plotting and utility functions
ahaz Regularization for semiparametric additive hazards regression
AICcmodavg Model selection and multimodel inference based on (Q)AIC(c)
AID An R Package to Estimate Box-Cox Power Transformation Parameter
AIGIS Areal Interpolation for GIS data
AIM AIM: adaptive index model
AIS Tools to look at the data ("Ad Inidicia Spectata")
akima Interpolation of irregularly spaced data
akmeans Adaptive Kmeans algorithm based on threshold
alabama Constrained nonlinear optimization
ALDqr Quantile Regression Using Asymmetric Laplace Distribution
aLFQ
AlgDesign Algorithmic Experimental Design
ALKr Generate Age-Length Keys for fish populations
allan Automated Large Linear Analysis Node
allanvar Allan Variance Analysis
allelematch Identifying unique multilocus genotypes where genotyping error and missing data may be present
AlleleRetain Allele Retention, Inbreeding, and Demography
allelic A fast, unbiased and exact allelic exact test
AllPossibleSpellings Computes all of a word's possible spellings.
alm
alphahull Generalization of the convex hull of a sample of points in the plane
alphashape3d Implementation of the 3D alpha-shape for the reconstruction of 3D sets from a point cloud
alr3 Data to accompany Applied Linear Regression 3rd edition
alr4 Data to accompany Applied Linear Regression 4rd edition
ALS multivariate curve resolution alternating least squares (MCR-ALS)
ALSCPC
AMA Anderson-Moore Algorithm
amap Another Multidimensional Analysis Package
AMAP.Seq Compare Gene Expressions from 2-Treatment RNA-Seq Experiments
amba Additive Models for Business Applications
amei Adaptive Management of Epidemiological Interventions
Amelia Amelia II: A Program for Missing Data
amen Additive and multiplicative effects modeling of networks and relational data
amer Additive mixed models with lme4
AmericanCallOpt This package includes pricing function for selected American call options with underlying assets that generate payouts.
AMGET Post-processing tool for ADAPT 5
AMORE A MORE flexible neural network package
anacor Simple and Canonical Correspondence Analysis.
anaglyph 3D Anaglyph Plots
analogue Analogue and weighted averaging methods for palaeoecology
AnalyzeFMRI Functions for analysis of fMRI datasets stored in the ANALYZE or NIFTI format.
anametrix Bidirectional connector to Anametrix API
anapuce Tools for microarray data analysis
AncestryMapper Ancestry Mapper
anchors Statistical analysis of surveys with anchoring vignettes
AnDE An extended Bayesian Learning Technique developed by Dr. Geoff Webb
andrews Andrews curves
anesrake ANES Raking Implementation
Animal Analyze time-coded animal behavior data
animalTrack
animation A gallery of animations in statistics and utilities to create animations
anm Analog model for downscaling
ANN Feedforward Artificial Neural Network optimized by Genetic Algorithm
AnnotLists AnnotLists: A tool to annotate multiple lists from a specific annotation file.
anoint Analysis of interactions
ant Version of ant specific to R
AnthropMMD A GUI for Mean Measures of Divergence
antitrust Antitrust Library
aod Analysis of Overdispersed Data
aods3 Analysis of Overdispersed Data using S3 methods
AOfamilies Aranda-Ordaz (AO) transformation families
aoristic
apcluster Affinity Propagation Clustering
ape Analyses of Phylogenetics and Evolution
aplpack Another Plot PACKage: stem.leaf, bagplot, faces, spin3R, and some slider functions
appell Compute Appell's F1 hypergeometric function
apple Approximate Path for Penalized Likelihood Estimators
AppliedPredictiveModeling Functions and Data Sets for 'Applied Predictive Modeling'
approximator Bayesian prediction of complex computer codes
APSIMBatch Analysis the output of Apsim software
apsrtable apsrtable model-output formatter for social science
apt Asymmetric Price Transmission (apt)
apTreeshape Analyses of Phylogenetic Treeshape
aqfig Functions to help display air quality model output and monitoring data
aqp Algorithms for Quantitative Pedology
aqr Interface methods to use with an ActiveQuant Master Server
AquaEnv AquaEnv - an integrated development toolbox for aquatic chemical model generation
ARAMIS A R Adaptive Multiple Importance Sampling
aratio Assessment ratio analysis
archetypes Archetypal Analysis
ArDec Time series autoregressive-based decomposition
ARES Environment air pollution epidemiology: a library for time series analysis
arf3DS4 Activated Region Fitting, fMRI data analysis (3D).
arfima Fractional ARIMA Time Series Modeling
argosfilter Argos locations filter
argparse Command line optional and positional argument parser.
arm Data Analysis Using Regression and Multilevel/Hierarchical Models
aroma.affymetrix Analysis of large Affymetrix microarray data sets
aroma.apd A probe-level data file format used by aroma.affymetrix [DEPRECATED]
aroma.cn Copy-number analysis of large microarray data sets
aroma.core Core methods and classes used by aroma.* packages part of The Aroma Framework
aroma.light Light-weight methods for normalization and visualization of microarray data using only basic R data types
ArrayBin Binarization of numeric data arrays
arrayhelpers Convenience functions for arrays
arrayImpute Missing imputation for microarray data
arrayMissPattern Exploratory analysis of Missing patterns for microarray data
ars Adaptive Rejection Sampling
ARTIVA Infer a time-varying DBN network from time series data.
ARTP Gene and Pathway p-values computed using the Adaptive Rank Truncated Product
arules Mining Association Rules and Frequent Itemsets
arulesNBMiner Mining NB-Frequent Itemsets and NB-Precise Rules
arulesSequences Mining frequent sequences
arulesViz Visualizing Association Rules and Frequent Itemsets
asbio A collection of statistical tools for biologists
ascii Export R objects to several markup languages
ascrda Augmented SCRDA
asd Simulations for adaptive seamless designs
ash David Scott's ASH routines
aspace A collection of functions for estimating centrographic statistics and computational geometries for spatial point patterns
aspect Aspects of Multivariables
assertive Readable check functions to ensure code integrity.
AssetPricing Optimal pricing of assets with fixed expiry date.
assist A Suite of S-Plus Functions Implementing Smoothing Splines
AssotesteR Statistical Tests for Genetic Association Studies
aster Aster Models
aster2 Aster Models
astro Astronomy Functions, Tools and Routines
astroFns Astronomy: time and position functions, misc. utilities
astsa Applied Statistical Time Series Analysis
asuR Advanced statistics using R
asympTest Asymptotic statistic
asypow Calculate Power Utilizing Asymptotic Likelihood Ratio Methods
AtelieR A GTK GUI for teaching basic concepts in statistical inference, and doing elementary bayesian tests.
atm Additive Term Models
atmi Analysis of technical market indicators
AtmRay Acoustic Traveltime Calculations for 1-D Atmospheric Models
attfad Evaluation and comparison of expression data and GRNs
AUC Threshold independent performance measures for probabilistic classifiers.
AUCRF Variable Selection with Random Forest and the Area Under the Curve
audio Audio Interface for R
audiolyzR audiolyzR: Give your data a listen
audit Bounds for Accounting Populations
auteur Bayesian sampler of the trait-evolutionary process
automap Automatic interpolation package
autopls pls regression with backward selection of predictors
AutoSEARCH General-to-Specific (GETS) Model Selection
aws Adaptive Weights Smoothing
AWS.tools R package to use Amazon Web Services
awsMethods Class and Methods definitions for packages aws, adimpro, fmri, dwi
aylmer A generalization of Fisher's exact test
B2Z Bayesian Two-Zone Model
b6e6rl Adaptive differential evolution, b6e6rl variant
BaBooN Bayesian Bootstrap Predictive Mean Matching - Multiple and single imputation for discrete data
BACCO Bayesian Analysis of Computer Code Output (BACCO)
backfitRichards Backfitted independent values of Richards curves
backtest Exploring portfolio-based conjectures about financial instruments
BACprior Sensitivity of the Bayesian Adjustment for Confounding (BAC) algorithm to the choice of hyperparameter omega.
BADER Bayesian Analysis of Differential Expression in RNA Sequencing Data
BAEssd Bayesian Average Error approach to Sample Size Determination
bagRboostR Ensemble bagging and boosting classifiers
BaM Functions and datasets for books by Jeff Gill.
BAMD Bayesian Association Model for Genomic Data with Missing Covariates
bamdit Bayesian Meta-Analysis of diagnostic test data
bams
bandit
barcode Barcode distribution plots
BARD Better Automated ReDistricting
bark Bayesian Additive Regresssion Kernels
Barnard Barnard's Unconditional Test
BAS Bayesian Model Averaging using Bayesian Adaptive Sampling
BaSAR Bayesian Spectrum Analysis in R
base64 Base 64 encoder/decoder
base64enc Tools for base64 encoding
baseline Baseline Correction of Spectra
basicspace A Package to Recover a Basic Space from Issue Scales
BASIX
BaSTA A package for estimating age-specific survival from incomplete capture-recapture/recovery data
batade HTML reports and so on
batch Batching Routines in Parallel and Passing Command-Line Arguments to R
BatchExperiments Statistical experiments on batch computing clusters.
BatchJobs Batch computing with R.
batchmeans Consistent Batch Means Estimation of Monte Carlo Standard Errors
BayesBridge Bridge Regression
bayesCGH Bayesian analysis of array CGH data
bayesclust Tests/Searches for significant clusters in genetic data.
BayesComm Bayesian community ecology analysis
bayescount Power calculations and Bayesian analysis of count distributions and FECRT data using MCMC
BayesCR Bayesian analysis of censored linear regression models with scale mixtures of normal (SMN) distributions.
BayesDA Functions and Datasets for the book "Bayesian Data Analysis"
bayesDem Graphical User Interface for bayesTFR, bayesLife and bayesPop
BayesFactor Computation of Bayes factors for common designs
bayesGARCH Bayesian Estimation of the GARCH(1,1) Model with Student-t Innovations
bayesGDS Functions to implement Generalized Direct Sampling
BayesLCA
bayesLife Bayesian Projection of Life Expectancy
BayesLogit Logistic Regression
bayesm Bayesian Inference for Marketing/Micro-econometrics
bayesMCClust
bayesmix Bayesian Mixture Models with JAGS
BayesNI BayesNI: Bayesian Testing Procedure for Noninferiority with Binary Endpoints
bayespack Numerical Integration for Bayesian Inference
BayesPanel Bayesian Methods for Panel Data Modeling and Inference
bayesPop Probabilistic Population Projection
bayespref Hierarchical Bayesian analysis of ecological count data
bayesQR Bayesian quantile regression
BayesQTLBIC Bayesian multi-locus QTL analysis based on the BIC criterion
bayess Bayesian Essentials with R
BayesSAE
BayesSingleSub Computation of Bayes factors for interrupted time-series designs
bayesSurv Bayesian Survival Regression with Flexible Error and Random Effects Distributions
bayesTFR Bayesian Fertility Projection
Bayesthresh Bayesian thresholds mixed-effects models for categorical data
BayesTree Bayesian Methods for Tree Based Models
BayesValidate BayesValidate Package
BayesVarSel Bayesian Variable selection in Linear Models
BayesX R Utilities Accompanying the Software Package BayesX
BayesXsrc R Package Distribution of the BayesX C++ Sources
BayHap Bayesian analysis of haplotype association using Markov Chain Monte Carlo
BayHaz R Functions for Bayesian Hazard Rate Estimation
BaylorEdPsych R Package for Baylor University Educational Psychology Quantitative Courses
BaySIC Bayesian Analysis of Significantly Mutated Genes in Cancer
BAYSTAR On Bayesian analysis of Threshold autoregressive model (BAYSTAR)
BB Solving and Optimizing Large-Scale Nonlinear Systems
bbefkr
bbemkr Bayesian bandwidth estimation for multivariate kernel regression with Gaussian error
BBmisc Miscellaneous helper functions for B. Bischl.
bbmle Tools for general maximum likelihood estimation
BBMM Brownian bridge movement model
bbo Biogeography-Based Optimization
bc3net BC3NET
BCA Business and Customer Analytics
BCBCSF Bias-corrected Bayesian Classification with Selected Features
BCDating Business Cycle Dating and Plotting Tools - BCDating
BcDiag Diagnostics plots for Bicluster Data
BCE Bayesian composition estimator: estimating sample (taxonomic) composition from biomarker data
BCEA Bayesian Cost Effectiveness Analysis
BCEs0 Bayesian models for cost-effectiveness analysis in the presence of structural zero costs
Bchron Bayesian radiocarbon chronologies and relative sea level analysis
Bclim Bayesian Palaeoclimate Reconstruction from Pollen
bclust Bayesian clustering using spike-and-slab hierarchical model, suitable for clustering high-dimensional data.
bcool Bringing to light significant Columns correlated with Organism Labels
bcp A Package for Performing a Bayesian Analysis of Change Point Problems
bcrm
bcv Cross-Validation for the SVD (Bi-Cross-Validation)
bda Density Estimation for Binned/Weighted Data
BDgraph Graph determination based on birth-death MCMC
bdoc Bayesian Discrete Ordered Classification of DNA Barcodes
bdpv Inference and design for predictive values in binary diagnostic tests
bdsmatrix Routines for Block Diagonal Symmetric matrices
bdynsys Bayesian Dynamical System Model
beadarrayFilter Bead filtering for Illumina bead arrays
beadarrayMSV Analysis of Illumina BeadArray SNP data including MSV markers
beanplot Visualization via Beanplots (like Boxplot/Stripchart/Violin Plot)
bear Average bioequivalence and bioavailability data analysis tool
BEDASSLE Disentangles the effects of geographic and ecological isolation on genetic differentiation
beeswarm The bee swarm plot, an alternative to stripchart
belief Contains basic functions to manipulate belief functions and associated mass assignments
benchden 28 benchmark densities from Berlinet/Devroye (1994)
benchmark Benchmark Experiments Toolbox
Benchmarking Benchmark and frontier analysis using DEA and SFA
BenfordTests Statistical Tests for Evaluating Conformity to Benford's Law
bentcableAR Bent-Cable Regression for Independent Data or Autoregressive Time Series
ber Batch Effects Removal
Bergm Bayesian analysis for exponential random graph models
BerkeleyEarth
Bessel Bessel -- Bessel Functions Computations and Approximations
BEST Bayesian Estimation Supersedes the t-Test
bestglm Best Subset GLM
betafam Detecting rare variants for quantitative traits using nuclear families
betapart Partitioning beta diversity into turnover and nestedness components
betaper Functions to incorporate taxonomic uncertainty on multivariate analyses of ecological data
betareg Beta Regression
betategarch Simulation, estimation and forecasting of Beta-Skew-t-EGARCH models
betfairly Access Betfair API from R
bethel Bethel's algorithm.
bfa Bayesian Factor Analysis
bfast Breaks For Additive Season and Trend (BFAST)
bfp Bayesian Fractional Polynomials
bgeva Binary Generalized Extreme Value Additive Models
BGLR
bgmm Gaussian Mixture Modeling algorithms. Including the belief-based mixture modeling.
BGPhazard
BGSIMD Block Gibbs Sampler with Incomplete Multinomial Distribution
BH The Boost C++ Libraries
Bhat General likelihood exploration
BHH2 Useful Functions for Box, Hunter and Hunter II
biasbetareg Bias correction of the parameter estimates of the beta regression model
BiasedUrn Biased Urn model distributions
bibtex bibtex parser
biclust BiCluster Algorithms
bicreduc Reduction algorithm for the NPMLE for the distribution function of bivariate interval-censored data
BiDimRegression Calculates the bidimensional regression between two 2D configurations
bifactorial Inferences for bi- and trifactorial trial designs
biganalytics A library of utilities for big.matrix objects of package bigmemory.
bigdata Big Data Analytics
bigGP Distributed Gaussian process calculations
BiGGR Creates an interface to BiGG database, provides a framework for simulation and produces flux graphs
biglars Scalable Least-Angle Regression and Lasso
biglm bounded memory linear and generalized linear models
bigmatrix Tuning Insensitive Graph Estimation and Regression
bigmemory Manage massive matrices with shared memory and memory-mapped files
bigmemory.sri A shared resource interface for Bigmemory Project packages
bigml R bindings for the BigML API
biGraph Analysis Toolbox For Bipartite Graphs
bigrf Big Random Forests: Classification and Regression Forests for Large Data Sets
bigRR Generalized Ridge Regression (with special advantage for p >> n cases)
bigtabulate table-, tapply-, and split-like functionality for matrix and big.matrix objects.
BigTSP Top Scoring Pair based methods for classification
bild bild: a package for BInary Longitudinal Data
bim Bayesian Interval Mapping Diagnostics
bimetallic Power for SNP analyses using silver standard cases
binarySimCLF Simulates Correlated Binary Data
BINCO Bootstrap Inference for Network COstruction
bindata Generation of Artificial Binary Data
binGroup Evaluation and experimental design for binomial group testing
binhf Haar-Fisz functions for binomial data
binMto Asymptotic simultaneous confidence intervals for many-to-one comparisons of proportions
BinNor Simultaneous generation of multivariate binary and normal variates.
binom Binomial Confidence Intervals For Several Parameterizations
binomialcftp Generates binomial random numbers via the coupling from the past algorithm
binomlogit Efficient MCMC for Binomial Logit Models
binomSamSize Confidence intervals and sample size determination for a binomial proportion under simple random sampling and pooled sampling
binomTools Performing diagnostics on binomial regression models
binseqtest Exact Binary Sequential Designs and Analysis
bio.infer Predict environmental conditions from biological observations
Biodem Biodemography functions
BiodiversityR GUI for biodiversity, suitability and community ecology analysis
BioGeoBEARS BioGeography with Bayesian (and Likelihood) Evolutionary Analysis in R Scripts
Biograph Explore life histories
BioIDMapper Mapping between BioIDs
biom An interface package (beta) for the BIOM file format.
BioMark Find biomarkers in two-class discrimination problems
BiomarkeR Paired (pBI) and Unpaired Biomarker Identifier (uBI) including a method to infer networks.
biomod2 Ensemble platform for species distribution modeling
bionetdata
biopara Self-contained parallel system for R
BioPhysConnectoR BioPhysConnectoR
biOps Image processing and analysis
biOpsGUI GUI for Basic image operations
bios2mds From BIOlogical Sequences to MultiDimensional Scaling
BioStatR Initiation
bipartite Visualising bipartite networks and calculating some (ecological) indices.
BiplotGUI Interactive Biplots in R
birch Dealing with very large datasets using BIRCH
bise Auxiliary functions for phenological data analysis
bisectr Tools to find bad commits with git bisect
biseVec Auxiliary functions for phenological data analysis
bisoreg Bayesian Isotonic Regression with Bernstein Polynomials
bit A class for vectors of 1-bit booleans
bit64
bitops Bitwise Operations
bivarRIpower Sample size calculations for bivariate longitudinal data
bivpois Bivariate Poisson Models Using The EM Algorithm
biwavelet Conduct univariate and bivariate wavelet analyses
biwt Functions to compute the biweight mean vector and covariance & correlation matrices
bizdays
BlakerCI Blaker's binomial confidence limits
BLCOP Black-Litterman and copula-opinion pooling frameworks
blender Analyze biotic homogenization of landscapes
blighty United Kingdom coastlines
blkergm
blm Binomial linear and linear-expit regression
blme Bayesian Linear Mixed-Effects Models
blockcluster Co-Clustering package for binary, contingency, continuous and categorical data-sets.
BlockMessage Creates strings that show a text message in 8 by 8 block letters
blockmodeling An R package for Generalized and classical blockmodeling of valued networks
blockrand Randomization for block random clinical trials
blockTools Block, assign, and diagnose potential interference in randomized experiments
BLR Bayesian Linear Regression
BMA Bayesian Model Averaging
BMAmevt
bmd Benchmark dose analysis for dose-response data
bmem Mediation analysis with missing data using bootstrap
Bmix Bayesian Sampling for Stick-breaking Mixtures
bmk MCMC diagnostics package
BMN The pseudo-likelihood method for pairwise binary markov networks
bmp Read Windows Bitmap (BMP) images
bmrm Bundle Methods for Regularized Risk Minimization Package
BMS Bayesian Model Averaging Library
bnlearn Bayesian network structure learning, parameter learning and inference
BNPdensity Ferguson-Klass type algorithm for posterior normalized random measures
bnpmr Bayesian monotonic nonparametric regression
boa Bayesian Output Analysis Program (BOA) for MCMC
BOG Bacterium and virus analysis of Orthologous Groups (BOG) is a package for identifying differentially regulated genes in the light of gene functions.
boilerpipeR Interface to the boilerpipe Java library by Christian Kohlschutter (http://code.google.com/p/boilerpipe/)
Bolstad Bolstad functions
Bolstad2 Bolstad functions
boolean Boolean Binary Response Models
boolfun Cryptographic Boolean Functions
BoolNet Generation, reconstruction, simulation and analysis of synchronous, asynchronous, and probabilistic Boolean networks
boost Boosting Methods for Real and Simulated Data
boostSeq Optimized GWAS cohort subset selection for resequencing studies
boot Bootstrap Functions (originally by Angelo Canty for S)
BootCL Bootstrapping test for chromosomal localization
bootES Bootstrap Effect Sizes
bootfs Use multiple feature selection algorithms to derive robust feature sets for two or multiclass classification problems.
BootPR Bootstrap Prediction Intervals and Bias-Corrected Forecasting
bootRes Bootstrapped Response and Correlation Functions
bootruin A bootstrap test for the probability of ruin in the classical risk process
bootspecdens Testing equality of spectral densities
bootStepAIC Bootstrap stepAIC
bootstrap Functions for the Book "An Introduction to the Bootstrap"
Boruta A wrapper algorithm for all-relevant feature selection
boss Boosted One-Step Statistics: Fast and accurate approximations for GLM, GEE and Mixed models for use in GWAS
BoSSA a Bunch of Structure and Sequence Analysis
boussinesq Analytic Solutions for (ground-water) Boussinesq Equation
bpca Biplot of Multivariate Data Based on Principal Components Analysis
bpcp Beta Product Confidence Procedure for Right Censored Data
bPeaks bPeaks: a simple and intuitive approach for detection of basic peaks (bPeaks) from ChIP-seq data
BPHO Bayesian Prediction with High-order Interactions
bpkde Back-Projected Kernel Density Estimation
bqtl Bayesian QTL mapping toolkit
BradleyTerry Bradley-Terry Models -- this package is now deprecated in favour of 'BradleyTerry2'
BradleyTerry2 Bradley-Terry Models
BrailleR Improved access for blind useRs
brainwaver Basic wavelet analysis of multivariate time series with a visualisation and parametrisation using graph theory.
branchLars Cost-efficient Variable Selection
breakage SICM pipette tip geometry estimation
bReeze Functions for wind resource assessment
brew Templating Framework for Report Generation
brglm Bias reduction in binomial-response generalized linear models.
bride Brier score decomposition of probabilistic forecasts for binary events
brlr Bias-reduced logistic regression
brnn brnn (Bayesian regularization for feed-forward neural networks)
Brobdingnag Very large numbers in R
broman Karl Broman's R code
Brq Bayesian analysis of quantile regression models.
BRugs R interface to the OpenBUGS MCMC software
bs Package for the Birnbaum-Saunders distribution
BSagri Statistical methods for safety assessment in agricultural field trials
bscr Bayesian parametric and semi-parametric analyses for semi-competing risks data
BSDA Basic Statistics and Data Analysis
BsMD Bayes Screening and Model Discrimination
bsml Basis Selection from Multiple Libraries
bspec Bayesian spectral inference
bspmma bspmma: Bayesian Semiparametric Models for Meta-Analysis
BSquare Bayesian Simultaneous Quantile Regression
bst Gradient Boosting
bstats Ordinary Regression Analysis with R
BTSPAS Bayesian Time-Strat. Population Analysis
BTYD Implementing Buy 'Til You Die Models
bujar Buckley-James Regression for Survival Data with High-Dimensional Covariates
BurStFin
BurStMisc Burns Statistics miscellaneous
bursts Markov model for bursty behavior in streams
butler Unit testing, profiling and benchmarking for R
bvenn A Simple alternative to proportional Venn diagrams
bvls The Stark-Parker algorithm for bounded-variable least squares
bvpSolve Solvers for boundary value problems of ordinary differential equations
BVS Bayesian Variant Selection: Bayesian Model Uncertainty Techniques for Genetic Association Studies
bwsurvival Nonparametric conditional survival function for successive survival times
c060 Additional variable selection, model validation and parameter tuning functions for glmnet models
c3net Infering large-scale gene networks with C3NET
C50 C5.0 Decision Trees and Rule-Based Models
ca Simple, Multiple and Joint Correspondence Analysis
cabootcrs Bootstrap Confidence Regions for Correspondence Analysis.
cacher Tools for caching and distributing statistical analyses
cacheSweave Tools for caching Sweave computations
cacIRT Classification accuracy and consistency under Item Response Theory
CaDENCE Conditional Density Estimation Network Construction and Evaluation
CADFtest This package performs the CADF unit root test proposed in Hansen (1995).
CADStat Provides a GUI to several statistical methods useful for causal assessment.
caGUI A Tcl/Tk GUI for the functions in the ca package
Cairo 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.
cairoDevice Cairo-based cross-platform antialiased graphics device driver.
CalciOMatic Automatic Calcium Imaging Analysis
calib Statistical tool for calibration of plate based bioassays
calibFit Statistical models and tools for assay calibration
calibrate Calibration of Scatterplot and Biplot Axes
calibrator Bayesian calibration of complex computer codes
CALINE3
calmate CalMaTe - Improved allele-specific copy number of SNP arrays for downstream segmentation
CAMAN Finite Mixture Models and meta-analysis tools - based on C.A.MAN
caMassClass Processing & Classification of Protein Mass Spectra (SELDI) Data
camel
cancerTiming Estimation of temporal ordering of cancer abnormalities
candisc Visualizing Generalized Canonical Discriminant and Canonical Correlation Analysis
canvas R graphics device targeting the HTML canvas element.
cape Combined analysis of pleiotropy and epistasis
caper Comparative Analyses of Phylogenetics and Evolution in R
capme Covariate Adjusted Precision Matrix Estimation
capushe Capushe, data-driven slope estimation and dimension jump
capwire Estimates population size from non-invasive sampling
car Companion to Applied Regression
CARBayes Spatial areal unit modelling
CarbonEL Carbon Event Loop
carcass Estimation of the number of fatalities from carcass searches
cardidates Identification of cardinal dates in ecological time series
care High-Dimensional Regression and CAR Score Variable Selection
CARE1
caret Classification and Regression Training
caretLSF Classification and Regression Training LSF Style
caretNWS Classification and Regression Training in Parallel Using NetworkSpaces
caribou Estimation of caribou abundance based on large scale aggregations monitored by radio telemetry
caroline A Collection of Database, Data Structure, Visualization, and Utility Functions for R
CARramps Reparameterized and marginalized posterior sampling for conditional autoregressive models
CARrampsOcl
CAscaling
caschrono S
caspar Clustered and sparse regression (CaSpaR)
cat Analysis of categorical-variable datasets with missing values
catdata
CatDyn Fishery Stock Assessment by Catch Dynamic Models
catenary Fits a catenary to given points
catIrt An R Package for Simulating IRT-Based Computerized Adaptive Tests
catmap Case-control And Tdt Meta-Analysis Package
catnet Categorical Bayesian Network Inference
caTools Tools: moving window statistics, GIF, Base64, ROC AUC, etc.
catR Procedures to generate IRT adaptive tests (CAT)
catspec Special models for categorical variables
CausalGAM Estimation of Causal Effects with Generalized Additive Models
causalsens Selection Bias Approach to Sensitivity Analysis for Causal Effects
Causata Analysis utilities for binary classification and Causata users.
CAVIAR Collection of Functions for Processing, Visualizing and Analyzing Cambial Activity and Wood Formation Monitoring Data
cba Clustering for Business Analytics
CBPS R Package for Covariate Balancing Propensity Score
CCA Canonical correlation analysis
CCAGFA Bayesian canonical correlation analysis and group factor analysis
ccaPP (Robust) canonical correlation analysis via projection pursuit
cccd Class Cover Catch Digraphs
ccChooser Developing a core collections
cccrm CCC-RM
ccems Combinatorially Complex Equilibrium Model Selection
ccgarch Conditional Correlation GARCH models
cclust Convex Clustering Methods and Clustering Indexes
CCM Correlation classification method (CCM)
CCMtools Clustering through "Correlation Clustering Model" (CCM) and cluster analysis tools.
CCP Significance Tests for Canonical Correlation Analysis (CCA)
CCTpack
cda Coupled dipole approximation in electromagnetic scattering
cdb Reading and Writing Constant DataBases
CDFt Statistical downscaling through CDF-transform
CDLasso Coordinate Descent Algorithms for Lasso Penalized L1, L2, and Logistic Regression
CDM Cognitive Diagnosis Modeling
CDNmoney Components of Canadian Monetary and Credit Aggregates
CDVine Statistical inference of C- and D-vine copulas
cec2005benchmark Benchmark for the CEC 2005 Special Session on Real-Parameter Optimization
cec2013 Benchmark functions for the Special Session and Competition on Real-Parameter Single Objective Optimization at CEC-2013
celestial Collection of common astronomical conversion routines.
CellularAutomaton One-Dimensional Cellular Automata
cellVolumeDist Functions to fit cell volume distributions and thereby estimate cell growth rates and division times
celsius Retrieve Affymetrix microarray measurements and metadata from Celsius
cem Coarsened Exact Matching
cems Conditional expectation manifolds.
censNID
censReg Censored Regression (Tobit) Models
CensRegMod Fitting Normal and Student-t censored regression model.
CePa Centrality-based pathway enrichment
cepp
cfa Analysis of configuration frequencies (CFA)
CfEstimateQuantiles Estimate quantiles using any order Cornish-Fisher expansion
CFL Compensatory Fuzzy Logic
cg Comparison of groups
cgAUC Calculate AUC-type measure when gold standard is continuous and the corresponding optimal linear combination of variables with respect to it.
cgdsr R-Based API for accessing the MSKCC Cancer Genomics Data Server (CGDS).
CGene Causal Genetic Analysis
cggd Continuous Generalized Gradient Descent
cgh Microarray CGH analysis using the Smith-Waterman algorithm
cghFLasso Detecting hot spot on CGH array data with fused lasso regression.
cghseg Segmentation methods for array CGH analysis
CGIwithR CGI Programming in R
CGP Composite Gaussian process models
cgwtools My collection of useful tools
ChainLadder Statistical methods for the calculation of outstanding claims reserves in general insurance
ChangeAnomalyDetection Change Anomaly Detection
changeLOS Change in LOS
changepoint An R package for changepoint analysis
charlson Converts listwise icd9 data into comorbidity count and Charlson Index
CHCN Canadian Historical Climate Network
cheatmap
cheb Discrete Linear Chebyshev Approximation
chebpol Multivariate Chebyshev interpolation
CheckDigit Calculate and verify check digits
cheddar Analysis and visualisation of ecological communities
chemCal Calibration functions for analytical chemistry
chemometrics Multivariate Statistical Analysis in Chemometrics
ChemometricsWithR Chemometrics with R - Multivariate Data Analysis in the Natural Sciences and Life Sciences
ChemometricsWithRData Data for package ChemometricsWithR
chemosensors
ChemoSpec Exploratory Chemometrics for Spectroscopy
cherry Multiple testing methods for exploratory research
chillR Statistical methods for phenology analysis in temperate fruit trees
chngpt
CHNOSZ Chemical Thermodynamics and Activity Diagrams
ChoiceModelR Choice Modeling in R
choplump Choplump tests
chords Estimation in respondent driven samples.
chplot Augmented Convex Hull Plots
chron Chronological objects which can handle dates and times
CHsharp Choi and Hall Clustering in 3d
CIFsmry
cimis R package for retrieving data from CIMIS.
cin Causal Inference for Neuroscience
CINID
cir Nonparametric estimation of monotone functions via isotonic regression and centered isotonic regression
circlize Circular layout in R
CircNNTSR CircNNTSR: An R package for the statistical analysis of circular data using nonnegative trigonometric sums (NNTS) models
CircSpatial Functions For Circular Spatial Data
CircStats Circular Statistics, from "Topics in circular Statistics" (2001)
circular Circular Statistics
cit Causal Inference Test
CITAN CITation ANalysis toolpack
citbcmst Assigning tumor samples to CIT Breast Cancer Molecular Subtypes from gene expression data
citccmst CIT Colon Cancer Molecular SubTypes Prediction
CityPlot Visualization of structure and contents of a database
Ckmeans.1d.dp Optimal distance-based clustering for one-dimensional data
clac Clust Along Chromosomes, a method to call gains/losses in CGH array data
cladoRcpp C++ implementations of phylogenetic calculations
CLAG An unsupervised non hierarchical clustering algorithm handling biological data
class Functions for Classification
classGraph Construct Graphs of S4 Class Hierarchies
classifly Explore classification models in high dimensions
classify Classification Accuracy and Consistency under IRT models.
classInt Choose univariate class intervals
classPP Projection Pursuit for supervised classification
cldr Language Identifier based on CLD library
clhs
clim.pact Climate analysis and empirical-statistical downscaling (ESD) package for monthly and daily data.
climatol Some Tools for Climatology: series homogenization, plus windrose and Walter&Lieth diagrams
climdex.pcic PCIC implementation of Climdex routines
clime Constrained L1-minimization for Inverse (covariance) Matrix Estimation
clines Calculates Contour Lines
clinfun Clinical Trial Design and Data Analysis Functions
ClinicalRobustPriors Robust Bayesian Priors in Clinical Trials: An R Package for Practitioners
clinsig Clinical significance functions.
clinUtiDNA Clinical Utility of DNA Testing
clogitL1 Fitting exact conditional logistic regression with lasso and elastic net penalties.
cloudRmpi Cloud-based MPI Parallel Processing for R (cloudRmpi)
cloudRmpiJars Third-party jars for cloudRmpi
cloudUtil Cloud Util Plots
clpAPI R Interface to C API of COIN-OR Clp
CLSOCP A smoothing Newton method SOCP solver
clue Cluster ensembles
clues Clustering Method Based on Local Shrinking
cluster Cluster Analysis Extended Rousseeuw et al.
clusterCons Calculate the consensus clustering result from re-sampled clustering experiments with the option of using multiple algorithms and parameter
clusterCrit Clustering Indices
clusterfly Explore clustering interactively using R and GGobi
clustergas A hierarchical clustering method based on genetic algorithms
clusterGeneration random cluster generation (with specified degree of separation)
clusterGenomics Identifying clusters in genomics data by recursive partitioning
clusterPower Power calculations for cluster-randomized and cluster-randomized crossover trials
clusterRepro Reproducibility of gene expression clusters
clusterSim Searching for optimal clustering procedure for a data set
clusteval Evaluation of Clustering Algorithms
clusthaplo Clustering of haplotypes
ClustOfVar Clustering of variables
clustrd
clustsig Significant Cluster Analysis
clustTool GUI for clustering data with spatial information
clustvarsel Variable Selection for Model-Based Clustering
clv Cluster Validation Techniques
clValid Validation of Clustering Results
cmaes Covariance Matrix Adapting Evolutionary Strategy
CMC Cronbach-Mesbah Curve
cmm Categorical Marginal Models
cMonkey cMonkey integrated biclustering algorithm
cmprsk Subdistribution Analysis of Competing Risks
cmprskContin Continuous mark-specific relative risks for two groups
cmrutils Misc Functions of the Center for the Mathematical Research
cncaGUI Canonical Non-symmetrical Correspondence Analysis in R
CNprep pre-process DNA copy number (CN) data for detection of CN events
CNVassoc Association analysis of CNV data
CNVassocData
coalescentMCMC MCMC Algorithms for the Coalescent
coarseDataTools A collection of functions to help with analysis of coarsely observed data
COBRA Nonlinear Aggregation of Predictors
cobs COBS -- Constrained B-splines (Sparse matrix based)
cobs99 Constrained B-splines -- outdated 1999 version
CoClust Copula based cluster analysis
CoCo Graphical modelling by log-linear models (an interface from R to CoCo)
CoCoCg Graphical modelling by CG regressions
CoCoGraph Interactive and dynamic graphs for the CoCo objects
cocor Comparing correlations
cocorresp Co-correspondence analysis methods
cocron Statistical comparisons of two or more alpha coefficients
coda Output analysis and diagnostics for MCMC
codep Multiscale Codependence Analysis
codetools Code Analysis Tools for R
coefficientalpha Robust Cronbach's alpha with missing and non-normal data
coefplot Plots Coefficients from Fitted Models
coenoflex Gradient-Based Coenospace Vegetation Simulator
coexist Species coexistence modeling and analysis
coin Conditional Inference Procedures in a Permutation Test Framework
CoinMinD Simultaneous Confidence Interval for Multinomial Proportion
colbycol Read big text files column by column, sometimes much bigger than available RAM, into R.
colcor Tests for column correlation in the presence of row correlation
cold cold: a package for Count Longitudinal Data
CollocInfer Collocation Inference for Dynamic Systems
coloc Colocalisation tests of two genetic traits
colorfulVennPlot Plot and add custom coloring to Venn diagrams for 2-dimensional, 3-dimensional and 4-dimensional data.
colorout Colorize R output on terminal emulators
colorRamps Builds color tables
colorspace Color Space Manipulation
colortools Tools for colors in an HSV color model
combinat combinatorics utilities
CombMSC Combined Model Selection Criteria
comclim
commandr Command pattern in R
CommonJavaJars Useful libraries for building a Java based GUI under R
CommonTrend Extract and plot common trends from a cointegration system. Calculate P-value for Johansen Statistics.
comorbidities Categorizes ICD-9-CM codes based on published comorbidity indices
Comp2ROC Compare two ROC curves that intersect
compactr Creates empty plots with compact axis notation
ComPairWise Compare phylogenetic or population genetic data alignments
compare Comparing Objects for Differences
compareGroups Descriptive analysis by groups
compareODM comparison of medical forms in CDISC ODM format
CompareTests Estimate diagnostic accuracy (sensitivity, specificity, etc) and agreement statistics when one test is conducted on only a subsample of specimens
comparison Multivariate likelihood ratio calculation and evaluation
compeir Reporting event-specific incidence rates for competing risks data
CompetingRiskFrailty Competing Risk Model with Frailties for Right Censored Survival Data
compHclust Complementary Hierarchical Clustering
complex.surv.dat.sim Simulation of complex survival data
CompLognormal Functions for actuarial scientists
CompModSA Sensitivity Analysis for Complex Computer Models
compoisson Conway-Maxwell-Poisson Distribution
COMPoissonReg Conway-Maxwell Poisson (COM-Poisson) Regression
compositions Compositional Data Analysis
compositionsGUI Graphical User Environment for Compositional Data Analysis
compound.Cox Regression estimation based on the compound shrinkage method under the Cox proportional hazard model
Compounding Computing Continuous Distributions
compOverlapCorr Comparing overlapping correlation coefficients
CompQuadForm Distribution function of quadratic forms in normal variables
CompRandFld Composite-likelihood based Analysis of Random Fields
compute.es Compute Effect Sizes
ConConPiWiFun This package contains an implementation of continuous convex piecewise (linear and quadratic) functions
concor Concordance
concord Concordance and reliability
concreg Concordance regression
cond Approximate conditional inference for logistic and loglinear models
condGEE Parameter estimation in conditional GEE for recurrent event gap times
condmixt Conditional Density Estimation with Neural Network Conditional Mixtures
CondReg Condition Number Regularized Covariance Estimation
coneproj Primal or Dual Cone Projections with Routines for Shape-restricted Regression
conf.design Construction of factorial designs
confReg Confidence Estimators for Individual Regression Predictions
conics Plot Conics
conjoint Conjoint analysis package
ConjointChecks A package to check the cancellation axioms of conjoint measurement.
connectedness Find disconnected subsets for a two-way classification
CONOR CONOR
CONORData CONORData
constrainedKriging Constrained, covariance-matching constrained and universal point or block kriging
Containers Object-Oriented Data Structures for R
contfrac Continued fractions
conting Bayesian analysis of contingency tables
contrast A collection of contrast methods
ConvCalendar Converts dates between calendars
ConvergenceConcepts Seeing convergence concepts in action
convevol
convexHaz Nonparametric MLE/LSE of convex hazard
COP Variables selection for index models via correlation pursuit
copas Statistical methods to model and adjust for bias in meta-analysis
copBasic Basic Theoretical Copula, Empirical Copula, and Various Utility Functions
copula Multivariate Dependence with Copulas
copulaedas Estimation of Distribution Algorithms Based on Copulas
CopulaRegression Bivariate Copula Based Regression Models
CopyDetect An R Package for Computing Statistical Indices to Detect Answer Copying on Multiple-Choice Tests
corcounts Generate correlated count random variables
CORE Cores of Recurrent Events
CORElearn CORElearn - classification, regression, feature evaluation and ordinal evaluation
corHMM Analysis of binary character evolution
corpcor Efficient Estimation of Covariance and (Partial) Correlation
corpora Statistics and data sets for corpus frequency data
CorrBin Nonparametrics with clustered binary data
Correlplot
CORREP Multivariate Correlation Estimator and Statistical Inference Procedures.
corrgram Plot a correlogram
corrperm Permutation Tests of Correlation with Repeated Measurements
corrplot Visualization of a correlation matrix
corrsieve CorrSieve
corTools
COSINE COndition SpecIfic sub-NEtwork
cosmoFns Functions for cosmological distances, times, luminosities, etc.
cosso Fit Regularized Nonparametric Regression Models Using COSSO Penalty.
costat Time series costationarity determination
cotrend Consistant Cotrend Rank Selection
COUNT Functions, data and code for count data.
countrycode Convert country names and country codes
CountsEPPM Mean and variance modeling of count data
covLCA Latent Class Models with Covariate Effects on Underlying and Measured Variables
Covpath COVPATH Package
covRobust Robust Covariance Estimation via Nearest Neighbor Cleaning
CovSel
covTest Computes covariance test for adaptive linear modelling
CoxBoost Cox models by likelihood based boosting for a single survival endpoint or competing risks
coxme Mixed Effects Cox Models.
coxphf Cox regression with Firth's penalized likelihood
coxphw Weighted Cox regression
CoxRidge Cox models with dynamic ridge penalties
coxrobust Robust Estimation in Cox Model
COZIGAM Constrained and Unconstrained Zero-Inflated Generalized Additive Models with Model Selection Criterion
cpa
CPE Concordance Probability Estimates in Survival Analysis
CpGassoc Association between Methylation and a phenotype of interest
CPGchron Create radiocarbon-dated depth chronologies
CPHshape Find the maximum likelihood estimator of the shape constrained hazard baseline and the effect parameters in the Cox proportional hazards model
cpk Clinical Pharmacokinetics
cplexAPI R Interface to C API of IBM ILOG CPLEX
cplm Compound Poisson linear models
cpm
CPMCGLM Correction of the pvalue after multiple coding
Cprob Conditional probability function of a competing event
CR Power Calculation for Weighted Log-Rank Tests in Cure Rate Models
cramer Multivariate nonparametric Cramer-Test for the two-sample-problem
crank Completing ranks
crantastic Various R tools for http://crantastic.org/
crawl Fit continuous-time correlated random walk models to animal movement data
crblocks Categorical Randomized Block Data Analysis
crch
CreditMetrics Functions for calculating the CreditMetrics risk model
crimCV Group-Based Modelling of Longitudinal Data
CRM Continual Reassessment Method (CRM) for Phase I Clinical Trials
crmn CCMN and other noRMalizatioN methods for metabolomics data
crn Downloads and Builds datasets for Climate Reference Network
crossdes Construction of Crossover Designs
crosshybDetector Detection of cross-hybridization events in microarray experiments
crossmatch The Cross-match Test
crp.CSFP
crq Censored Quantile Regression
crqa
crrSC Competing risks regression for Stratified and Clustered data
crrstep Stepwise covariate selection for the Fine & Gray competing risks regression model
crs Categorical Regression Splines
CRTSize Sample Size Estimation Functions for Cluster Randomized Trials
CrypticIBDcheck Identifying cryptic relatedness in genetic association studies
csampling Functions for Conditional Simulation in Regression-Scale Models
cSFM
cshapes CShapes Dataset and Utilities
cslogistic Conditionally Specified Logistic Regression
csound Accessing Csound functionality through R
CSS Extract information from an html document with CSS selectors
csSAM csSAM - cell-specific Significance Analysis of Microarrays
ctarma Estimation and simulation of CARMA(p,q)
CTFS The CTFS Large Plot Forest Dynamics Analyses
cthresh Complex Wavelet Denoising software.
cts Continuous Time Autoregressive Models
CTT Classical Test Theory Functions
ctv CRAN Task Views
cubature Adaptive multivariate integration over hypercubes
Cubist Rule- and Instance-Based Regression Modeling
cudaBayesreg CUDA Parallel Implementation of a Bayesian Multilevel Model for fMRI Data Analysis
cudaBayesregData Data sets for the examples used in the package "cudaBayesreg"
cudia CUDIA Cross-level Imputation
CUMP Analyze Multivariate Phenotypes by Combining Univariate results
cumplyr Extends ddply to allow calculation of cumulative quantities.
cumSeg Change point detection in genomic sequences
currentSurvival Estimation of CCI and CLFS Functions
curvclust Curve clustering
curvetest 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...
curvHDR curvHDR filtering of flow cytometry samples
cusp Cusp Catastrophe Model Fitting Using Maximum Likelihood
cvAUC Cross-Validated Area Under the ROC Curve Confidence Intervals
CvM2SL1Test L1-version of Cramer-von Mises Two Sample Tests
CvM2SL2Test Cramer-von Mises Two Sample Tests
cvplogistic Penalized Logistic Regression Model using Majorization Minimization by Coordinate Descent (MMCD) Algorithm
cvq2 Calculate the predictive squared correlation coefficient
CVST Fast Cross-Validation via Sequential Testing
CVThresh Level-Dependent Cross-Validation Thresholding
cvTools Cross-validation tools for regression models
cvxclustr Splitting methods for convex clustering
cwhmisc Miscellaneous Functions for math, plotting, printing, statistics, strings, and tools
cwm Cluster Weighted Models by EM algorithm
cxxfunplus extend cxxfunction by saving the dynamic shared objects
cxxPack R/C++ Tools for Literate Statistical Practice
cyclones Cyclone identification
cyphid Cycle and Phase Identification for mastication data
cytoDiv Cytometric diversity indices
d3Network Tools for creating D3 JavaScript network and tree graphs from R
DAAG Data Analysis And Graphics data and functions
DAAGbio Data Sets and Functions, for demonstrations with expression arrays and gene sequences
DAAGxtras Data Sets and Functions, supplementary to DAAG
dae Functions useful in the design and ANOVA of experiments
daewr Design and Analysis of Experiments with R
dafs Data analysis for forensic scientists
DAGGER Consensus genetic maps
dagR R functions for directed acyclic graphs
Daim Diagnostic accuracy of classification models.
DAKS Data Analysis and Knowledge Spaces
DALY
DALY DALY Calculator - A GUI for stochastic DALY calculation in R
DAMisc Dave Armstrong's Miscellaneous Functions
DandEFA
darch Package for deep architectures and Restricted-Bolzmann-Machines
DART Denoising Algorithm based on Relevance network Topology
DARTData Example data set for DART package
darts Statistical Tools to Analyze Your Darts Game
data.table Extension of data.frame for fast indexing, fast ordered joins, fast assignment, fast grouping and list columns.
DatABEL file-based access to large matrices stored on HDD in binary format
datacheck Tools for checking data consistency
DataCombine R tools for making it easier to combine and clean data sets.
dataframe Fast data frames
DataFrameConstr Constrained data frames and homogenous list classes
dataframes2xls dataframes2xls writes data frames to xls files
datamap A system for mapping foreign objects to R variables and environments
datamart Unified access to your data sources
datamerge Merging of overlapping and inconsistent data
dataone DataONE R Client
dataonelibs DataONE R Client Libraries
dataQualityR
datautils Support functions for packages VBmix, semisupKernelPCA, and patchPlot.
dataview Human readable data presentation
date Functions for handling dates
DATforDCEMRI Deconvolution Analysis Tool for Dynamic Contrast Enhanced MRI
dave Functions for "Data Analysis in Vegetation Ecology"
Davies The Davies quantile function
dbConnect Provides a graphical user interface to connect with databases that use MySQL.
dbEmpLikeGOF Goodness-of-fit and two sample comparison tests using sample entropy
dbEmpLikeNorm Test for joint assessment of normality
DBGSA methods of distance-based gene set functional enrichment analysis.
DBI R Database Interface
DBKGrad Discrete Beta Kernel Graduation of mortality data
dblcens Compute the NPMLE of distribution from doubly censored data
dbmss Distance-based measures of spatial structures
dbstats Distance-based statistics (dbstats)
dcemri A Package for Medical Image Analysis
dcemriS4 A Package for Medical Image Analysis (S4 implementation)
dcens Doubly censoring estimation
DCGL Differential Co-expression Analysis and Differential Regulation Analysis of Gene Expression Microarray Data
DCL
dclone Data Cloning and MCMC Tools for Maximum Likelihood Methods
dclong.spt Sequential Permutation Test
DCluster Functions for the detection of spatial clusters of diseases
dcmle Hierarchical Models Made Easy with Data Cloning
dcv Conventional Cross-validation statistics for climate-growth model
ddalpha DDalpha-Classifier
DDD
ddepn Dynamic Deterministic Effects Propagation Networks: Infer signalling networks for timecourse RPPA data.
ddesolve Solver for Delay Differential Equations
DDHFm Variance Stabilization by Data-Driven Haar-Fisz (for Microarrays)
ddst Data driven smooth test
DEA Data Envelopment Analysis.
deal Learning Bayesian Networks with Mixed Variables
deamer Deconvolution density estimation with adaptive methods for a variable prone to measurement error
debug MVB's debugger for R
decctools Get energy data from the UK Dept of Energy and Climate Change
DECIDE DEComposition of Indirect and Direct Effects
decon Deconvolution Estimation in Measurement Error Models
Deducer Deducer
DeducerExtras Additional dialogs and functions for Deducer
DeducerMMR A Deducer plugin for moderated multiple regressions and simple slopes analysis
DeducerPlugInExample Deducer Plug-in Example
DeducerPlugInScaling Reliability and factor analysis plugin
DeducerSpatial Deducer for spatial data analysis
DeducerSurvival Add Survival Dialogue to Deducer
DeducerText Deducer GUI for Text Data
deducorrect deducorrect: Deductive correction, deductive imputation, and deterministic correction.
Defaults Create Global Function Defaults
degenes Detection of differentially expressed genes.
degreenet Models for Skewed Count Distributions Relevant to Networks
Delaporte Statistical functions for the Delaporte distribution
deldir Delaunay Triangulation and Dirichlet (Voronoi) Tessellation.
delftfews delftfews R extensions
delt Estimation of multivariate densities with adaptive histograms
deltaPlotR Identification of dichotomous differential item functioning (DIF) using Angoff's Delta Plot method
Demerelate Functions to calculate relatedness on diploid genetic data
DEMEtics Evaluating the genetic differentiation between populations based on Gst and D values.
demi Differential Expression from Multiple Indicators
demogR Analysis of age-structured demographic models
demography Forecasting mortality, fertility, migration and population data
demoKde
dendroextras Extra functions to cut, label and colour dendrogram clusters
DendSer Dendrogram seriation: ordering for visualisation
denpro Visualization of multivariate, functions, sets, and data
denstrip Density strips and other methods for compactly illustrating distributions
DEoptim Global optimization by Differential Evolution
Depela Depela
depend.truncation
depmix Dependent Mixture Models
depmixS4 Dependent Mixture Models - Hidden Markov Models of GLMs and Other Distributions in S4
depth Depth functions tools for multivariate analysis
depthTools Depth Tools Package
descr Descriptive statistics
DescribeDisplay R interface to DescribeDisplay (GGobi plugin)
deseasonalize Optimal deseasonalization for geophysical time series using AR fitting
Design Design Package
designGG Computational tool for designing genetical genomics experiments.
DesignPatterns Design Patterns in R to build reusable object-oriented software
desirability Desirabiliy Function Optimization and Ranking
desire Desirability functions in R
deSolve General Solvers for Initial Value Problems of Ordinary Differential Equations (ODE), Partial Differential Equations (PDE), Differential Algebraic Equations (DAE), and Delay Differential Equations (...
detect Analyzing Wildlife Data with Detection Error
deTestSet Testset for differential equations
detrendeR Start the detrendeR Graphical User Interface (GUI)
DetSel A computer program to detect markers responding to selection
devEMF EMF graphics output device
Devore5 Data sets from Devore's "Prob and Stat for Eng (5th ed)"
Devore6 Data sets from Devore's "Prob and Stat for Eng (6th ed)"
Devore7 Data sets from Devore's "Prob and Stat for Eng (7th ed)"
devtools Tools to make developing R code easier
df2json Convert a dataframe to JSON
dfcrm Dose-finding by the continual reassessment method
dfoptim Derivative-free Optimization
dglars Differential Geometric LARS (dgLARS) method
dglm Double generalized linear models
dgmb dgmb Simulating data for PLS structural models
dgof Discrete Goodness-of-Fit Tests
dhglm Double Hierarchical Generalized Linear Models
DiagnosisMed Diagnostic test accuracy evaluation for medical professionals.
diagram Functions for visualising simple graphs (networks), plotting flow diagrams
DiagTest3Grp Diagnostic test summary measures for three ordinal groups
diamonds Analysis and sampling grids from diamond partitions
dice Calculate probabilities of various dice-rolling events
DiceDesign Designs of Computer Experiments
DiceEval Construction and evaluation of metamodels
DiceKriging Kriging methods for computer experiments
DiceOptim Kriging-based optimization for computer experiments
DiceView Plot methods for computer experiments design and surrogate.
dichromat Color Schemes for Dichromats
dicionariosIBGE Dictionaries for reading microdata surveys from IBGE
DICOM Import medical imaging data using the DICOM Standard
dielectric Defines some physical constants and dielectric functions commonly used in optics, plasmonics.
DierckxSpline R companion to "Curve and Surface Fitting with Splines"
diff Statistics: What's the Difference?
diffdepprop Calculates Confidence Intervals for two Dependent Proportions
diffEq Functions from the book Solving Differential Equations in R
diffractometry Baseline identification and peak decomposition for x-ray diffractograms
diffusionMap Diffusion map
DIFlasso
difR Collection of methods to detect dichotomous differential item functioning (DIF) in psychometrics
digeR GUI tool for analyzing 2D DIGE data
digest Create cryptographic hash digests of R objects
Digiroo2 An application programming interface for generating null models of social contacts based on individuals' space use
digitize digitize : a plot digitizer in R
DIME DIME (Differential Identification using Mixture Ensemble)
dinamic DiNAMIC A Method To Analyze Recurrent DNA Copy Number Aberrations in Tumors
diptest Hartigan's dip test statistic for unimodality - corrected code
DIRECT Bayesian Clustering of Multivariate Data Under the Dirichlet-Process Prior
directlabels Direct labels for multicolor plots in lattice or ggplot2
directPA
dirichlet Dirichlet model of consumer buying behavior for marketing research
DirichletReg Dirichlet Regression in R
dirmult Estimation in Dirichlet-Multinomial distribution.
disclap Discrete Laplace Exponential Family
disclapmix Discrete Laplace mixture inference using the EM algorithm
DiscreteInverseWeibull Discrete inverse Weibull distribution
DiscreteLaplace
discreteMTP Multiple testing procedures for discrete test statistics
discreteRV Functions to create and manipulate discrete random variables
DiscreteWeibull Discrete Weibull distribution
discretization Data preprocessing, discretization for classification.
discrimARTs Discrimination of Alternative Reproductive Tactics (ARTs).
DiscriMiner Tools of the Trade for Discriminant Analysis
diseasemapping Calculate observed and expected disease incidence counts from a case file and population data.
dismo Species distribution modeling
disp2D 2D Hausdorff and Simplex Dispersion Orderings
displayHTS displayHTS
dispmod Dispersion models
Distance A simple way to fit detection functions to distance sampling data and calculate abundance/density for biological populations.
DistatisR DiSTATIS Three Way Metric Multidimensional Scaling
distfree.cr Distribution-free confidence region (distfree.cr)
distillery Method Functions for Confidence Intervals and to Distill Information from an Object
distory Distance Between Phylogenetic Histories
distr Object oriented implementation of distributions
distrDoc Documentation for packages distr, distrEx, distrSim, distrTEst, distrTeach, distrMod, and distrEllipse
distrEllipse S4 classes for elliptically contoured distributions
distrEx Extensions of package distr
distributions Probability distributions based on TI-83 Plus
DistributionUtils Distribution Utilities
distrMod Object oriented implementation of probability models
distrRmetrics Package distr classes for distributions from Rmetrics
distrSim Simulation classes based on package distr
distrTeach Extensions of package distr for teaching Stochastics/Statistics in secondary school
distrTEst Estimation and Testing classes based on package distr
divagis Provides tools for quality checks of georeferenced plant species accessions.
diveMove Dive analysis and calibration
diversitree 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.
DiversitySampler Functions for re-sampling a community matrix to compute diversity indices at different sampling levels.
divisors Find the divisors of a number
DivMelt HRM Diversity Assay Analysis Tool
dixon Nearest Neighbour Contingency Table Analysis
dkDNA Diffusion kernels on a set of genotypes.
dlm Bayesian and Likelihood Analysis of Dynamic Linear Models
dlmap Detection Localization Mapping for QTL
dlmodeler Generalized Dynamic Linear Modeler
dlnm Distributed Lag Non-linear Models
dma Dynamic model averaging
DMR Delete or Merge Regressors for linear model selection.
dmRTools Data Management Reporting Tool Version 1.0.1
dmt Dependency Modeling Toolkit
DMwR Functions and data for "Data Mining with R"
dna Differential Network Analysis
DNAtools Tools for analysing forensic genetic DNA data
DnE DnE(Distribution and Equation)
DOBAD Analysis of Discretely Observed linear Birth-And-Death(-and-immigration) Markov Chains
doBy doBy - Groupwise summary statistics, general linear contrasts, population means (least-squares-means), and other utilities
Dodge Functions for Acceptance Sampling Ideas originated by H.F. Dodge
DoE.base Full factorials, orthogonal arrays and base utilities for DoE packages
DoE.wrapper Wrapper package for design of experiments functionality
doMC Foreach parallel adaptor for the multicore package
Dominance ADI (average dominance index) and social network graphs with dual directions
doMPI Foreach parallel adaptor for the Rmpi package
doParallel Foreach parallel adaptor for the parallel package
doRedis Foreach parallel adapter for the rredis package
doRNG Generic Reproducible Parallel Backend for foreach Loops
DoseFinding Planning and Analyzing Dose Finding experiments
DOSim Disease Analysis toolkit for gene set; Computation of similarities between DO terms and disease similarity between gene products; Module detection among the gene set and multilayer annotation for...
doSMP Foreach parallel adaptor for the revoIPC package
doSNOW Foreach parallel adaptor for the snow package
dosresmeta
dostats
downloader A package for downloading files over http and https
dpa Dynamic Path Approach
dpcR
dpglasso Primal Graphical Lasso
dplR Dendrochronology Program Library in R
DPM.GGM Dirichlet Process Mixtures (DPM) and related models using Gaussian Graphical Models (GGM) for Sparse covariance estimation in heterogeneous samples
dpmixsim Dirichlet Process Mixture model simulation for clustering and image segmentation
DPpackage Bayesian nonparametric modeling in R
dprep Data preprocessing and visualization functions for classification
DPw Semiparametric Bayesian procedure for selecting a subset containing the weakest species with an acceptably high probability.
dr Methods for dimension reduction for regression
drawExpression Visualising R syntax through graphics
drc Analysis of dose-response curves
drfit Dose-response data evaluation
DRI DR-Integrator
driftsel Distinguishing drift and natural selection as causes of phenotypic differentiation
drm Regression and association models for repeated categorical data
drmdel
ds Descriptive Statistics
dsample Discretization-based Direct Random Sample Generation
DSBayes
dse Dynamic Systems Estimation (time series package)
dse1 DSE (unbundled transition package).
dse2 DSE (unbundled transition package).
DSL Distributed Storage and List
dsm Density surface modelling of distance sampling data
DSpat Spatial modelling for distance sampling data
DTComPair Comparison of Binary Diagnostic Tests in a Paired Study Design
DTDA Doubly truncated data analysis
dti Analysis of diffusion weighted imaging (DWI) data
DTK Dunnett-Tukey-Kramer Pairwise Multiple Comparison Test Adjusted for Unequal Variances and Unequal Sample Sizes
DTMCPack Suite of functions related to discrete-time discrete-state Markov Chains
DTR Estimation and comparison of dynamic treatment regimes
dtt Discrete Trigonometric Transforms
dtw Dynamic time warping algorithms
dummies Create dummy/indicator variables flexibly and efficiently
dupiR Bayesian inference from count data using discrete uniform priors
dvfBm Discrete variations of a fractional Brownian motion
dvn Access to The Dataverse Network APIs
DWD DWD implementation based on A IPM SOCP solver
dyad Analysis of dyadic observational data
dyn Time Series Regression
dynamicGraph dynamicGraph
dynamicTreeCut Methods for detection of clusters in hierarchical clustering dendrograms.
dynamo Dynamic Models
dynaTree Dynamic trees for learning and design
DynClust non-parametric denoising and clustering method of noisy images both indexed by time and space
dynCorr Dynamic Correlation Package
dynGraph Interactive visualization of dataframes and factorial planes
dynlm Dynamic Linear Regression
dynpred Companion package to "Dynamic Prediction in Clinical Survival Analysis"
dynsurv Dynamic models for survival data
e1071 Misc Functions of the Department of Statistics (e1071), TU Wien
eaf Plots of the Empirical Attainment Function
earlywarnings Early Warning Signals Toolbox for Detecting Critical Transitions in Timeseries
earth Multivariate Adaptive Regression Spline Models
easi EASI Demand System Estimation
EasyABC EasyABC: performing efficient approximate Bayesian computation sampling schemes
easyanova Analysis of variance and other important complementary analyzes
EasyHTMLReport EasyHTMLReport
easystab Clustering Perturbation Stability Analysis
EasyUpliftTree Easy Uplift Tree Model
eba Elimination-by-Aspects (EBA) Models
ebal Entropy reweighting to create balanced samples
EbayesThresh Empirical Bayes Thresholding and Related Methods
ebdbNet Empirical Bayes Estimation of Dynamic Bayesian Networks
EBMAforecast Ensemble BMA Forecasting
EBS Exact Bayesian Segmentation
Ecdat Data sets for econometrics
ecespa Functions for spatial point pattern analysis
eco R Package for Ecological Inference in 2x2 Tables
ecodist Dissimilarity-based functions for ecological analysis
EcoHydRology A community modeling foundation for Eco-Hydrology.
ecolMod "A practical guide to ecological modelling - using R as a simulation platform"
ecoreg Ecological regression using aggregate and individual data
ecosim Toolbox for Aquatic Ecosystem Modeling
EcoTroph
ecp Nonparametric Multiple Change Point Analysis of Multivariate Data
EDanalysis A R Package For Gene Enrichment Disequilibrium Analysis
edcc Economic Design of Control Charts
edci Edge Detection and Clustering in Images
edesign Maximum entropy sampling
EDISON Software for network reconstruction and changepoint detection.
editrules R package for parsing, applying, and manipulating data cleaning rules
EDR Estimation of the effective dimension reduction (EDR) space
edrGraphicalTools Provides tools for dimension reduction methods
edtdbg Integrating R's debug() with Your Text Editor
eeptools Convenience functions for education data
EffectiveDose Estimation of the Effective Dose including Bootstrap confidence intervals
effects Effect Displays for Linear, Generalized Linear, Multinomial-Logit, Proportional-Odds Logit Models and Mixed-Effects Models
EffectsRelBaseline
EffectStars Visualization of Categorical Response Models
effsize Functions for computing effect sizes
egarch EGARCH simulation and fitting
egonet Tool for ego-centric measures in Social Network Analysis
eha Event History Analysis
eHOF Extended and enhanced Hierarchical Logistic Regression models (so called Huisman-Olff-Fresco models).
eigendog EigenDog
eigeninv Generates (dense) matrices that have a given set of eigenvalues
eigenmodel Semiparametric factor and regression models for symmetric relational data
eigenprcomp Computes confidence intervals for principal components
EILA
eiPack eiPack: Ecological Inference and Higher-Dimension Data Management
eive An algorithm for reducing errors-in-variable bias in simple linear regression
EL Two-sample Empirical Likelihood
el.convex empirical likelihood ratio tests for means
elasticnet Elastic-Net for Sparse Estimation and Sparse PCA
elec Collection of functions for statistical election audits
elec.strat Functions for election audits using stratified random samples
ElectroGraph Enhanced routines for plotting and analyzing valued relational data.
ElemStatLearn 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.
elliplot
ellipse Functions for drawing ellipses and ellipse-like confidence regions
elliptic elliptic functions
elmNN Implementation of ELM (Extreme Learning Machine ) algorithm for SLFN ( Single Hidden Layer Feedforward Neural Networks )
elrm Exact Logistic Regression via MCMC
em2 A package for computing reading time measures for psycholinguistics.
EMA Easy Microarray data Analysis
EMC Evolutionary Monte Carlo (EMC) algorithm
EMCC Evolutionary Monte Carlo (EMC) methods for clustering
EMCluster EM Algorithm for Model-Based Clustering of Finite Mixture Gaussian Distribution
EMD Empirical Mode Decomposition and Hilbert Spectral Analysis
emdbook Ecological models and data (book support)
emdist Earth Mover's Distance
emg Exponentially Modified Gaussian (EMG) Distribution
EMJumpDiffusion EM-Algorithm for Jump Diffusion processes
emma Evolutionary model-based multiresponse approach
EMMAgeo End-member modelling algorithm and supporting functions for grain-size analysis
emme2 Read and Write to an EMME/2 databank
emoa Evolutionary Multiobjective Optimization Algorithms
empiricalBayes
emplik Empirical likelihood ratio for censored/truncated data
emplik2 Empirical-likelihood test (two-sample, censored data)
EmpLikeGOF Goodness of Fit Test for Empirical Likelihood
EMT Exact Multinomial Test: Goodness-of-Fit Test for Discrete Multivariate data
emu Interface to the Emu Speech Database System
emudata emudata - datasets for the emu package
emulator Bayesian emulation of computer programs
EMV Estimation of Missing Values for a Data Matrix
EMVC
ENA Ensemble Network Aggregation
enaR Tools for ecological network analysis (ena) in R
endogMNP R Package for Fitting Multinomial Probit Models with Endogenous Selection
endorse
energy E-statistics (energy statistics)
english Translate integers into English
EngrExpt Data sets from "Introductory Statistics for Engineering Experimentation"
ENmisc Neuwirth miscellaneous
EnQuireR A package dedicated to questionnaires
enRich An R package for the analysis of multiple ChIP-seq data
enrichvs Enrichment assessment of virtual screening approaches
ensembleBMA Probabilistic Forecasting using Ensembles and Bayesian Model Averaging
ensembleMOS Ensemble Model Output Statistics
entropart
entropy Estimation of Entropy, Mutual Information and Related Quantities
envelope Envelope normality test
enviPat Isotope pattern, profile and centroid calculation for mass spectrometry.
EnvNicheR Environmental niche
epade Easy Plots
Epi A package for statistical analysis in epidemiology.
epibase basic tools for the analysis of disease outbreaks.
epibasix Elementary Epidemiological Functions for Epidemiology and Biostatistics
epicalc Epidemiological calculator
EpiContactTrace Epidemiological tool for contact tracing
EpiEstim EpiEstim: a package to estimate time varying reproduction numbers from epidemic curves.
EpiModel Mathematical Modeling of Infectious Disease
epinet A collection of epidemic/network-related tools
epiR An R package for the analysis of epidemiological data
epitools Epidemiology Tools
epoc EPoC (Endogenous Perturbation analysis of Cancer)
epr Easy polynomial regression
epsi Edge Preserving Smoothing for Images
EQL Extended-Quasi-Likelihood-Function (EQL)
eqs2lavaan EQS Output Conversion to lavaan Functions
eqtl Tools for analyzing eQTL experiments: A complementary to Karl Broman's 'qtl' package for genome-wide analysis
equate Statistical Methods for Test Score Equating
equateIRT Direct, chain and average equating coefficients with standard errors using IRT methods.
EquiNorm Normalize expression data using equivalently expressed genes
equivalence Provides tests and graphics for assessing tests of equivalence
erboost
erer Empirical Research in Economics with R
ergm Fit, Simulate and Diagnose Exponential-Family Models for Networks
ergm.count Fit, Simulate and Diagnose Exponential-Family Models for Networks with Count Edges
ergm.graphlets
ergm.userterms User-specified terms for the statnet suite of packages
ergmharris Local Health Department network data set
eRm Extended Rasch Modeling
ES
esd4all esd4all
ESG ESG - A package for asset projection
esotericR esotericR articles from lemnica.com
ESPRESSO Power Analysis and Sample Size Calculation
EstCRM Calibrating Parameters for the Samejima's Continuous IRT Model
estout Estimates Output
EstSimPDMP Estimation of the jump rate and simulation for piecewise-deterministic Markov processes
etable Easy Table
ETAS Modeling earthquake data using Epidemic Type Aftershock Sequence model
ETC Equivalence to control
ETLUtils Utility functions to execute standard ETL operations (using package ff) on large data.
etm Empirical Transition Matrix
EuclideanMaps Displays Euclidean Maps
EvalEst Dynamic Systems Estimation - extensions
evaluate Parsing and evaluation tools that provide more details than the default.
EvCombR
evd Functions for extreme value distributions
evdbayes Bayesian Analysis in Extreme Value Theory
eVenn eVenn: A powerful tool to compare lists and draw Venn diagrams.
events Store and manipulate event data
eventstudies Event study and extreme event analysis
EVER Estimation of Variance by Efficient Replication
evir Extreme Values in R
evmix Extreme Value Mixture Modelling and Threshold Estimation
evobiR
evora
evtree Evolutionary Learning of Globally Optimal Trees
Exact Unconditional Exact Test
exact2x2 Exact Conditional Tests and Confidence Intervals for 2x2 tables
exactci Exact P-values and Matching Confidence Intervals for simple Discrete Parametric Cases
ExactCIdiff Inductive Confidence Intervals for the difference between two proportions
exactLoglinTest Monte Carlo Exact Tests for Log-linear models
exactmaxsel Maximally selected statistics for binary response variables - Exact methods
ExactNumCI Exact Confidence Interval for binomial proportions
ExactPath Exact solution paths for regularized LASSO regressions with L_1 penalty
exactRankTests Exact Distributions for Rank and Permutation Tests
ExactSampling ExactSampling: risk evaluation using exact resampling methods for the k Nearest Neighbor algorithm.
exams Automatic Generation of Exams in R
ExceedanceTools Confidence Regions for Exceedance Regions and Contour Lines
excel.link Convenient way to work with data in Microsoft Excel
excursions
ExomeCNV Detect CNV and LOH from Exome Sequencing Data
ExomeDepth
expands
ExPD2D Exact Computation of Bivariate Projection Depth Based on Fortran Code
ExpDes Experimental Designs package
ExpDes.pt Pacote Experimental Designs (Portuguese)
expectreg Expectile and Quantile Regression
experiment experiment: R package for designing and analyzing randomized experiments
expert Modeling without data using expert opinion
expm Matrix exponential
expoRkit Expokit in R
ExPosition Exploratory analysis with the singular value decomposition.
expoTree Calculate density dependent likelihood of a phylogenetic tree
expsmooth Data sets from "Forecasting with exponential smoothing"
exptest Tests for Exponentiality
exsic Convenience functions for botanist to create exsiccatae indices
extfunnel Additional Funnel Plot Augmentations
extraBinomial Extra-binomial approach for pooled sequencing data
extracat Categorical Data Analysis and Visualization
extrafont Tools for using fonts
extrafontdb Package for holding the database for the extrafont package
extraTrees ExtraTrees method
extRemes Extreme value toolkit.
extremevalues Univariate outlier detection
eyetracking Eyetracking Helper Functions
ez Easy analysis and visualization of factorial experiments.
ezglm selects significant non-additive interaction between two variables using fast GLM implementation.
ezsim provide an easy to use framework to conduct simulation
FacPad Bayesian Sparse Factor Analysis model for the inference of pathways responsive to drug treatment
factas Data Mining Methods
FactMixtAnalysis Factor Mixture Analysis with covariates
FactoClass Combination of Factorial Methods and Cluster Analysis
FactoMineR Multivariate Exploratory Data Analysis and Data Mining with R
factorQR Bayesian quantile regression factor models
factualR thin wrapper for the Factual.com server API
FAdist Distributions that are sometimes used in hydrology
Fahrmeir Data from the book "Multivariate Statistical Modelling Based on Generalized Linear Models", first edition, by Ludwig Fahrmeir and Gerhard Tutz
fail File Abstraction Interface Layer (FAIL) mimicking a key-value store
FAiR Factor Analysis in R
fairselect Feature Annealed Independence Rules (demo)
faisalconjoint
fame Interface for FAME time series database
Familias Probabilities for Pedigrees given DNA data
FAmle Maximum Likelihood and Bayesian Estimation of Univariate Probability Distributions
FAMT Factor Analysis for Multiple Testing (FAMT) : simultaneous tests under dependence in high-dimensional data
fanc Penalized likelihood factor analysis via nonconvex penalty
fANCOVA Nonparametric Analysis of Covariance
fanovaGraph Building Kriging models from FANOVA graphs
fanplot Visualisation of sequential probability distributions using fan charts.
FAOSTAT A complementary package to the FAOSTAT database and the Statistical Yearbook of the Food and Agricultural Organization of the United Nations.
faoutlier Influential case detection methods for factor analysis and SEM
far Modelization for Functional AutoRegressive processes
faraway Functions and datasets for books by Julian Faraway.
fArma ARMA Time Series Modelling
farmR Mixed Integer model of Arable Farms
farsi Translate integers into persian
fAsianOptions EBM and Asian Option Valuation
fAssets Rmetrics - Assets Selection and Modelling
fast Implementation of the Fourier Amplitude Sensitivity Test (FAST)
fastclime A fast solver for parameterized lp problems and constrained l1 minimization approach to sparse precision matrix estimation
fastcluster Fast hierarchical clustering routines for R and Python
fastcox Lasso and elastic-net penalized Cox's regression in high dimensions models using the cocktail algorithm
fastGHQuad Fast Rcpp implementation of Gauss-Hermite quadrature
fastICA FastICA Algorithms to perform ICA and Projection Pursuit
FastImputation Learn from training data then quickly fill in missing data.
fastmatch Fast match() function
FastPCS R package to compute the FastPCS outlyingness index.
fastR Data sets and utilities for Foundations and Applications of Statistics by R Pruim
FastRCS R package to compute the FastRCS Algorithm
FastRWeb Fast Interactive Framework for Web Scripting Using R
fastSOM Fast Calculation of Spillover Measures
fastVAR fastVAR
favir Formatted Actuarial Vignettes in R
FAwR
FAwR Functions and Datasets for "Forest Analytics with R".
fBasics Rmetrics - Markets and Basic Statistics
fbati Gene by Environment Interaction and Conditional Gene Tests for Nuclear Families
FBFsearch Algorithm for searching the space of Gaussian directed acyclic graphical models through moment fractional Bayes factors
FBN FISH Based Normalization and Copy Number inference of SNP microarray data
fBonds Bonds and Interest Rate Models
fbRanks Association Football (Soccer) Ranking via Poisson Regression
fCalendar Chronological and Calendarical Objects
fCertificates fCertificates - Basics of Certificates and Structured Products Valuation
fclust Fuzzy clustering
fCopulae Rmetrics - Dependence Structures with Copulas
fcros FCROS for detecting differentially expressed genes
FD Measuring functional diversity (FD) from multiple traits, and other tools for functional ecology
fda Functional Data Analysis
fda.usc Functional Data Analysis and Utilities for Statistical Computing (fda.usc)
fdakma Clustering and alignment of a functional dataset
fdaMixed Functional data analysis in a mixed model framework
fdasrvf Elastic Functional Data Analysis
fdatest Interval Testing Procedure for functional data
fdim Functions for calculating fractal dimension.
fdrci Permutation-based FDR Point and Confidence Interval Estimation
fdrtool Estimation of (Local) False Discovery Rates and Higher Criticism
fds Functional data sets
fdth Frequency Distribution Tables, Histograms and Poligons
FeaLect Scores features for Feature seLection
feature Feature significance for multivariate kernel density estimation
features Feature Extraction for Discretely-Sampled Functional Data
fechner Fechnerian Scaling of Discrete Object Sets
fEcofin Economic and Financial Data Sets
FeedbackTS
femmeR Output analysis of FEMME model results
FEST Identification of Family Relations using linked markers
fExoticOptions Exotic Option Valuation
fExpressCertificates
fExtremes Rmetrics - Extreme Financial Market Data
ff memory-efficient storage of large data on disk and fast access functions
ffbase Basic statistical functions for package ff
FFD Freedom From Disease
FField Force field simulation for a set of points
ffmanova Fifty-fifty MANOVA
fftw Fast FFT and DCT based on FFTW
fftwtools Wrapper for fftw3: includes 1-D, univariate and multivariate, and 2-D transform
fgac Generalized Archimedean Copula
FGalgorithm Flury and Gautschi algorithms
fGarch Rmetrics - Autoregressive Conditional Heteroskedastic Modelling
FGN Fractional Gaussian Noise and hyperbolic decay time series model fitting
fgof Fast Goodness-of-fit Test
fgui Function GUI
FHtest Tests for right and interval-censored survival data based on the Fleming-Harrington class
FI Provide functions for forest inventory calculations
FIAR Functional Integration Analysis in R
fields Tools for spatial data
FieldSim Random fields simulations
filehash Simple key-value database
filehashSQLite Simple key-value database using SQLite
filterviewR Get started easily with FilterView from R.
fImport Rmetrics - Economic and Financial Data Import
financial Solving financial problems in R
FinancialInstrument Financial Instrument Model Infrastructure for R
FinAsym Classifies implicit trading activity from market quotes and computes the probability of informed trading
FinCal Time Value of Money, time series analysis and Computational Finance
FindAllRoots Find all root(s) of the equation and Find root(s) of the equation by dichotomy
FindIt R Package for Finding Heterogeneous Treatment Effects
FindMinIC
finebalance Approximate fine balance when exact fine balance is not achievable
fingerprint Functions to operate on binary fingerprint data
FinTS Companion to Tsay (2005) Analysis of Financial Time Series
FisherEM The Fisher-EM algorithm
fisheyeR Fisheye and Hyperbolic-space-alike Interactive Visualization Tools in R
fishmethods Fishery Science Methods and Models in R
fishmove Prediction of Fish Movement Parameters
fit.models fit.models
fit4NM NONMEM platform
FitAR Subset AR Model Fitting
FitARMA FitARMA: Fit ARMA or ARIMA using fast MLE algorithm
fitdistrplus Help to fit of a parametric distribution to non-censored or censored data
fitDRC Fitting Density Ratio Classes
FITSio FITS (Flexible Image Transport System) utilities
fitTetra fitTetra is an R package for assigning tetraploid genotype scores
FKBL fuzzy knowledge base learning
FKF Fast Kalman Filter
flare Family of Lasso Regression
flashClust Implementation of optimal hierarchical clustering
FLCore
FLEDA
flexclust Flexible Cluster Algorithms
flexCrossHaz Flexible crossing hazards in the Cox model
flexCWM Flexible Cluster-Weighted Modeling
flexmix Flexible Mixture Modeling
FlexParamCurve Tools to Fit Flexible Parametric Curves
flexsurv Flexible parametric survival models
flip Multivariate Permutation Tests
FLLat Fused Lasso Latent Feature Model
flora flora: taxonomical information on flowering species that occur in Brazil
flsa Path algorithm for the general Fused Lasso Signal Approximator
flubase Baseline of mortality free of influenza epidemics
FluOMatic Estimation of background-subtracted fluorescence data
Flury Data Sets from Flury, 1997
flux Flux rate calculation from dynamic closed chamber measurements
fma Data sets from "Forecasting: methods and applications" by Makridakis, Wheelwright & Hyndman (1998)
FME A Flexible Modelling Environment for Inverse Modelling, Sensitivity, Identifiability, Monte Carlo Analysis.
fmri Analysis of fMRI experiments
fmsb Functions for medical statistics book with some demographic data
FMStable Finite Moment Stable Distributions
fmt Variance estimation of FMT method (Fully Moderated t-statistic)
fMultivar Multivariate Market Analysis
FNN Fast Nearest Neighbor Search Algorithms and Applications
fNonlinear Nonlinear and Chaotic Time Series Modelling
foba greedy variable selection
fontcm Computer Modern font for use with extrafont package
foodweb visualisation and analysis of food web networks
fOptions Basics of Option Valuation
forams Foraminifera and Community Ecology Analyses
foreach Foreach looping construct for R
ForeCA ForeCA - Forecastable Component Analysis
forecast Forecasting functions for time series and linear models
forecasting
foreign Read Data Stored by Minitab, S, SAS, SPSS, Stata, Systat, Weka, dBase, ...
forensic Statistical Methods in Forensic Genetics
forensim Statistical tools for the interpretation of forensic DNA mixtures
ForImp Imputation of missing values through a forward imputation algorithm
fork R functions for handling multiple processes.
FormalSeries Elementary arithemtic in formal series rings
formatR Format R Code Automatically
Formula Extended Model Formulas
formula.tools Utilities for working with formulas, expressions, calls and other R objects
FortranCallsR
fortunes R Fortunes
forward Forward search
fossil Palaeoecological and Palaeogeographical Analysis Tools
FourierDescriptors Generate images using Fourier descriptors.
FourScores FourScores - A game for two players
fpc Flexible procedures for clustering
fpca Restricted MLE for Functional Principal Components Analysis
fPortfolio Rmetrics - Portfolio Selection and Optimization - ebook available at www.rmetrics.org
fpow Computing the noncentrality parameter of the noncentral F distribution
fpp Data for "Forecasting: principles and practice"
fptdApprox Approximation of first-passage-time densities for diffusion processes.
fracdiff Fractionally differenced ARIMA aka ARFIMA(p,d,q) models
fracprolif Fraction Proliferation via a quiescent growth model
FracSim Simulation of L
fractal Fractal Time Series Modeling and Analysis
fractaldim Estimation of fractal dimensions
fractalrock Generate fractal time series with non-normal returns distribution
FRACTION Numeric number into fraction
frailtyHL Frailty Models via H-likelihood
frailtypack General Frailty models: shared, joint and nested frailty models with prediction
FRAPO Financial Risk Modelling and Portfolio Optimisation with R
FRB Fast and Robust Bootstrap
FRBData Download interest rate data from FRB's website
frbf Implementation of the "Flexible kernels for RBF network" algorithm
frbs Fuzzy Rule-based Systems for Classification and Regression Tasks
FRCC Fast Regularized Canonical Correlation Analysis
freeknotsplines Free-Knot Splines
fRegression Regression Based Decision and Prediction
FREQ
freqMAP Frequency Moving Average Plots (MAP) of Multinomial Data by a Continuous Covariate
FrF2 Fractional Factorial designs with 2-level factors
FrF2.catlg128 Catalogues of resolution IV 128 run 2-level fractional factorials up to 33 factors that do have 5-letter words
frmqa The Generalized Hyperbolic Distribution, Related Distributions and Their Applications in Finance
frontier Stochastic Frontier Analysis
frontiles Partial frontier efficiency analysis
frt Full Randomization Test
fscaret Automated caret feature selection
FSelector Selecting attributes
fSeries Financial Time Series Objects
fso Fuzzy Set Ordination
FTICRMS Programs for Analyzing Fourier Transform-Ion Cyclotron Resonance Mass Spectrometry Data
ftnonpar Features and Strings for Nonparametric Regression
fTrading Technical Trading Analysis
fts R interface to tslib (a time series library in c++)
ftsa Functional time series analysis
fugeR FUzzy GEnetic, a machine learning algorithm to construct prediction model based on fuzzy logic.
fume
fun Use R for Fun
FunCluster Functional Profiling of Microarray Expression Data
Funclustering
FuncMap Hive Plots of R Package Function Calls
functional Curry, Compose, and other higher-order functions
FunctSNP FunctSNP - SNP annotation data methods and species specific database builder
fUnitRoots Trends and Unit Roots
FunNet Integrative Functional Analysis of Transcriptional Networks
FusedPCA
futile Futile base package
futile.any Futile library to provide some polymorphic operations
futile.logger A logging library for R
futile.matrix Futile matrix utilities
futile.options Futile options management
futile.paradigm A framework for working in a functional programming paradigm in R
fUtilities Function Utilities
fuzzyFDR Exact calculation of fuzzy decision rules for multiple testing
FuzzyNumbers Tools to deal with fuzzy numbers
fuzzyOP Fuzzy numbers and the main mathematical operations
fuzzyRankTests Fuzzy Rank Tests and Confidence Intervals
FuzzyStatProb Fuzzy stationary probabilities from a sequence of observations of an unknown Markov chain
FuzzyToolkitUoN Type 1 Fuzzy Logic Toolkit
fwdmsa Forward search for Mokken scale analysis
FWDselect Selecting variables in regression models
fwi.fbp Fire Weather Index System and Fire Behaviour Prediction System Calculations
fwsim
fxregime Exchange Rate Regime Analysis
g.data Delayed-Data Packages
G.S. Uses Grieg-Smith method on 2 dimentional spatial data
G1DBN A package performing Dynamic Bayesian Network inference.
G2Sd Grain-size Statistics and Description of Sediment
GA Genetic Algorithms
GA4Stratification A genetic algorithm approach to determine stratum boundaries and sample sizes of each stratum in stratified sampling
GABi
GAD GAD: Analysis of variance from general principles
gafit Genetic Algorithm for Curve Fitting
gains Gains Table Package
GAIPE Graphical Extension with Accuracy in Parameter Estimation (GAIPE)
galts Genetic algorithms and C-steps based LTS (Least Trimmed Squares) estimation
gam Generalized Additive Models
gamair Data for "GAMs: An Introduction with R"
gambin
GAMBoost Generalized linear and additive models by likelihood based boosting
gamboostLSS Boosting Methods for GAMLSS Models
gamclass Functions and data for a course on modern regression and classification
GAMens Applies GAMbag, GAMrsm and GAMens ensemble classifiers for binary classification
games Statistical Estimation of Game-Theoretic Models
gamesNws Playing games using a NWS Server
gamlr Gamma Lasso Regression
gamlss Generalised Additive Models for Location Scale and Shape.
gamlss.add GAMLSS Additive.
gamlss.cens Fitting an interval response variable using gamlss.family distributions
gamlss.data GAMLSS Data.
gamlss.demo Demos for GAMLSS
gamlss.dist Distributions to be used for GAMLSS modelling.
gamlss.mx A GAMLSS add on package for fitting mixture distributions
gamlss.nl Fitting non linear parametric GAMLSS models
gamlss.tr Generating and fitting truncated (gamlss.family) distributions
gamlss.util GAMLSS Utilities.
gamm4 Generalized additive mixed models using mgcv and lme4
gammSlice Generalized additive mixed model analysis via slice sampling
GANPA Gene Association Network-based Pathway Analysis
GANPAdata The GANPA Datasets Package
gaoptim Genetic Algorithm optimization for real-based and permutation-based problems
gap Genetic analysis package
gaussDiff Difference measures for multivariate Gaussian probability density functions
gausspred Bayesian Classification with High-dimensional Gaussian Profiles
gaussquad Collection of functions for Gaussian quadrature
gazetools Gaze Tools
gb Generalize Lambda Distribution and Generalized Bootstrapping
GB2 Generalized Beta Distribution of the Second Kind: properties, likelihood, estimation.
gbev Gradient Boosted Regression Trees with Errors-in-Variables
gbm Generalized Boosted Regression Models
gbRd Utilities for processing Rd objects and files
gbs Package for Generalized Birnbaum-Saunders Distributions
gcbd GPU/CPU Benchmarking in Debian-based systems
gcdnet A generalized coordinate descent (GCD) algorithm for computing the solution path of the hybrid Huberized support vector machine (HHSVM) and its generalization.
gcExplorer Graphical Cluster Explorer
gcl Compute a fuzzy rules or tree classifier from data
gclus Clustering Graphics
gcmr Gaussian Copula Marginal Regression
gcmrec General class of models for recurrent event data
gcolor Provides an Inequation Algorithm Function and a solution to import DIMACS files.
gcookbook Data for "R Graphics Cookbook"
gdata Various R programming tools for data manipulation
GDD GD device for creating bitmap graphics as jpeg, png or gif files using gd library
GDELTtools
gdimap Generalized Diffusion Magnetic Resonance Imaging
gdistance distances and routes on geographical grids
gdor Generic Directions of Recession
gdsfmt CoreArray Genomic Data Structure (GDS) R Interface
gearman R interface to the Gearman Job Server
gee Generalized Estimation Equation solver
geeM Fit Generalized Estimating Equations
geepack Generalized Estimating Equation Package
geigen Calculate generalized eigenvalues of a matrix pair
geiger Analysis of evolutionary diversification
gems Generalized multistate simulation model
gemtc GeMTC network meta-analysis
gemtc.jar GeMTC Java binary
GenABEL genome-wide SNP association analysis
genalg R Based Genetic Algorithm
gene2pathway Prediction of KEGG pathway membership for individual genes based on InterPro domain signatures
GENEAread Package For Reading Binary files
geneARMA Simulate, model, and display data from a time-course microarray experiment with periodic gene expression
Geneclust Simulation and analysis of spatial structure of population genetics data
GeneCycle Identification of Periodically Expressed Genes
GeneF Package for Generalized F-statistics
genefu Relevant Functions for Gene Expression Analysis, Especially in Breast Cancer.
Geneland Detection of structure from multilocus genetic data.
geneListPie Profiling a gene list into GOslim or KEGG function pie
GeneNet Modeling and Inferring Gene Networks
GeneNT Relevance or Dependency network and signaling pathway discovery
genepi Genetic Epidemiology Design and Inference
GeneralizedHyperbolic The Generalized Hyperbolic Distribution
GeneReg Construct time delay gene regulatory network
geneSignatureFinder A Gene-signatures finder tools
genetics Population Genetics
GeneticTools Collection of Genetic Data Analysis Tools.
GeneTS Microarray Time Series and Network Analysis
GenKern Functions for generating and manipulating binned kernel density estimates
genlasso Path algorithm for generalized lasso problems
genMOSS Functions for the Bayesian analysis of GWAS data
genMOSSplus
genomatic Manages microsatellite projects. Creates 96-well maps, genotyping submission forms, rerun management, and import into statistical software.
genomicper Circular Genomic Permutation using GWAS p-values of association
genoPlotR Plot publication-grade gene and genome maps
GenOrd Simulation of ordinal and discrete variables with given correlation matrix and marginal distributions
genridge Generalized ridge trace plots for ridge regression
GenSA R functions for Generalized Simulated Annealing
gensemble generalized ensemble methods
genSurv Generating multi-state survival data
geofd Spatial prediction for function value data
GeoLight Analysis of light based geolocator data
GEOmap Topographic and Geologic Mapping
geomapdata Data for topographic and Geologic Mapping
geometry Mesh generation and surface tesselation
geomorph Geometric morphometric analyses of 2d/3d landmark data
geonames Interface to www.geonames.org web service
geophys Geophysics, Continuum Mechanics, Mogi Model
geoPlot Geocodes street or ip addresses and plots them on a map.
geoR Analysis of geostatistical data
geoRglm geoRglm - a package for generalised linear spatial models
georob Robust Geostatistical Analysis of Spatial Data
geoscale Geological timescale plot
geospacom Helper package to facilitate the generation of distance matrices used in the package spacom.
geosphere Spherical Trigonometry
geospt Spatial geostatistics; some geostatistical and radial basis functions, prediction and cross validation; design of optimal spatial sampling networks based on geostatistical modelling
geostatsp Geostatistics using SpatialPoints and rasters
geotools
geotopbricks geotopbricks
GeoXp Interactive exploratory spatial data analysis
geozoo Zoo of Geometric Objects
GESTr Gene Expression State Transformation
GetNenshuJP
getopt C-like getopt behavior.
GetR GetR: Calculate Guttman error trees in R
GEVcdn GEV conditional density estimation network
GExMap A visual, intuitive, easy to use software giving access to a new type of information buried into your microarray data.
GFMaps Visualization technique for interpretation of high-throughput genetic or proteomic experiments.
GGally Extension to ggplot2.
ggcolpairs Combination of GGplot2 plots into a matrix based on data columns.
ggdendro Tools for extracting dendrogram and tree diagram plot data for use with ggplot.
GGEBiplotGUI GGEBiplotGUI: Interactive GGE Biplots in R
GGIR GGIR
gglasso Group Lasso Penalized Learning Using A Unified BMD Algorithm
ggm A package for Graphical Markov Models
ggmap A package for spatial visualization with Google Maps and OpenStreetMap
ggmcmc Graphical tools for analyzing Markov Chain Monte Carlo simulations from Bayesian inference.
GGMselect Gaussian Graphs Models selection
ggparallel Variations of Parallel Coordinate Plots for Categorical Data
ggplot An implementation of the Grammar of Graphics in R
ggplot2 An implementation of the Grammar of Graphics
ggROC package for roc curve plot with ggplot2
ggsubplot Explore complex data by embedding subplots within plots.
ggthemes Extra themes, scales and geoms for ggplot
GhcnDaily Downloads and processes GHCN daily
ghyp A package on the generalized hyperbolic distribution and its special cases
gibbs.met Naive Gibbs Sampling with Metropolis Steps
GibbsACOV Gibbs Sampler for One-Way Mixed-Effects ANOVA and ANCOVA Models
GIGrvg Random variate generator for the GIG distribution
GillespieSSA Gillespie's Stochastic Simulation Algorithm (SSA)
gIPFrm Generalized Iterative Proportional Fitting for Relational Models
giRaph The giRaph package for graph representation in R
GISTools Some further GIS capabilities for R
gitter Robust and accurate quantification of pinned colony sizes in microorganisms
Giza Constructing panels of population pyramid plots based on lattice
glasso Graphical lasso- estimation of Gaussian graphical models
glassomix High dimensional Mixture Graph Models selection
gld Estimation and use of the generalised (Tukey) lambda distribution
GLDEX Fitting Single and Mixture of Generalised Lambda Distributions (RS and FMKL) using Various Methods
gldist An Asymmetry-Steepness Parameterization of the Generalized Lambda Distribution.
glinternet
gllm Generalised log-linear model
glm2 Fitting Generalized Linear Models
glmc Fitting Generalized Linear Models Subject to Constraints
glmdm R Code for Simulation of GLMDM
glmlep Fit GLM with LEP-based penalized maximum likelihood
glmmAK Generalized Linear Mixed Models
GLMMarp Generalized Linear Multilevel Model with AR(p) Errors Package
glmmBUGS Generalised Linear Mixed Models and Spatial Models with WinBUGS, BRugs, or OpenBUGS
glmmGS Gauss-Seidel Generalized Linear Mixed Model solver
glmmLasso Variable selection for generalized linear mixed models by L1-penalized estimation
glmmML Generalized linear models with clustering
glmnet Lasso and elastic-net regularized generalized linear models
glmnetcr Fit a penalized constrained continuation ratio model for predicting an ordinal response
glmpath L1 Regularization Path for Generalized Linear Models and Cox Proportional Hazards Model
glmpathcr Fit a penalized continuation ratio model for predicting an ordinal response.
glmperm Inference in Generalized Linear Models
glmulti Model selection and multimodel inference made easy
globalboosttest Testing the additional predictive value of high-dimensional data
GlobalDeviance
globalGSA
globalOptTests
glogis Fitting and Testing Generalized Logistic Distributions
glpk GNU Linear Programming Kit
glpkAPI R Interface to C API of GLPK
glrt Generalized Logrank Tests for Interval-censored Failure Time Data
gmaps Wrapper and auxilliary functions for maps package to work with grid graphics system.
gMCP Graph Based Multiple Comparison Procedures
GMD Generalized Minimum Distance of distributions
gmm Generalized Method of Moments and Generalized Empirical Likelihood
GMMBoost Likelihood-based Boosting for Generalized mixed models
gmodels Various R programming tools for model fitting
gmp Multiple Precision Arithmetic
gmt Interface between GMT Map-Making Software and R
gmvalid Validation of graphical models
gMWT Generalized Mann-Whitney Type Tests
gnm Generalized Nonlinear Models
gnmf Generalized Non-negative Matrix Factorization
gnomeGUI GNOME Console for R
gnumeric Read data from files readable by gnumeric
goalprog Weighted and lexicographical goal programming and optimization
gof Model-diagnostics based on cumulative residuals
GoFKernel GoFKernel: Testing Goodness-of-fit with the Kernel Density Estimator
GOFSN Goodness-of-fit tests for the family of skew-normal models
GOGANPA GO-Functional-Network-based Gene-Set-Analysis
gogarch Generalized Orthogonal GARCH (GO-GARCH) models
googlebigquery R client library for communicating with the Google Bigquery service
googlePublicData An R library to build Google's Public Data Explorer DSPL Metadata files
googleVis Interface between R and the Google Chart Tools
gooJSON Google JSON Data Interpreter for R
goric Generalized Order-Restricted Information Criterion
GOSim Computation of functional similarities between GO terms and gene products; GO enrichment analysis
GOsummaries Word cloud summaries of GO enrichment analysis
govdat
govStatJPN functions to get public survey data in Japan
gpairs gpairs: The Generalized Pairs Plot
GPArotation GPA Factor Rotation
gPCA Batch Effect Detection via Guided Principal Components Analysis
gpclib General Polygon Clipping Library for R
GPCSIV
gPdtest Bootstrap goodness-of-fit test for the generalized Pareto distribution
GPfit Gaussian Process Modeling
gpk 100 Data Sets for Statistics Education
gplm Generalized partial linear models (GPLM)
gplots Various R programming tools for plotting data
gpls Classification using generalized partial least squares
gpmap
gppois Gaussian Processes for Poisson-noised Data
gpr
gProfileR R interface to the g:Profiler toolkit
GPseq gpseq: Using the generalized Poisson distribution to model sequence read counts from high throughput sequencing experiments
gptk Gaussian Processes Tool-Kit
gputools A few GPU enabled functions
GPvam
grade Provides functions for matching student-answers to teacher answers for a variety of data types.
GRaF Species distribution modelling using latent Gaussian random fields
gRain Graphical Independence Networks
granova Graphical Analysis of Variance
granovaGG Graphical Analysis of Variance Using ggplot2
graph graph: A package to handle graph data structures
graphComp Visual graph comparison
gRapHD Efficient selection of undirected graphical models for high-dimensional datasets
GrapheR A multi-platform GUI for drawing customizable graphs in R
graphicsQC Quality Control for Graphics in R
graphite GRAPH Interaction from pathway Topological Environment
grasp Generalized Regression Analysis and Spatial Prediction for R
GRASS Interface between GRASS 5.0 geographical information system and R
GrassmannOptim Grassmann Manifold Optimization
gRbase A package for graphical modelling in R
gRc Inference in Graphical Gaussian Models with Edge and Vertex Symmetries
gRcox Inference in Graphical Gaussian Models with Edge and Vertex Symmetries
gregmisc Greg's Miscellaneous Functions
Grid2Polygons Convert Spatial Grids to Polygons
gridBase Integration of base and grid graphics
gridDebug
gridExtra functions in Grid graphics
gridGraphviz
GridR Executes functions on remote hosts, clusters or grids.
gridSVG Export grid graphics as SVG
GriegSmith Uses Grieg-Smith method on 2 dimentional spatial data
gRim Graphical Interaction Models
grImport Importing Vector Graphics
grnn General regression neural network
grnnR A Generalized Regression Neural Network
grofit The package was developed to fit fit many growth curves obtained under different conditions.
grouped Regression Analysis of Grouped and Coarse Data
GroupSeq Performing computations related to group sequential designs.
growcurves Bayesian semi and nonparametric growth curve models that additionally include multiple membership random effects.
growth
growthmodels
growthrate Bayesian reconstruction of growth velocity
grplasso Fitting user specified models with Group Lasso penalty
grpreg Regularization paths for regression models with grouped covariates
GRRGI Gauge R and R Confidence Intervals
grt General Recognition Theory
GRTo Tools for the analysis of Gutenberg-Richter distributions of earthquake magnitudes
GSA Gene set analysis
gsalib Utility functions for GATK
gsarima Two functions for Generalized SARIMA time series simulation
gsbDesign Group Sequential Bayes Design
gsc Generalised Shape Constraints
gsDesign Group Sequential Design
GSE Robust Estimation of Multivariate Location and Scatter in the Presence of Missing Data
gsg Calculation of selection coefficients
GSIF Global Soil Information Facilities
gsl wrapper for the Gnu Scientific Library
GSM Gamma Shape Mixture
gsmaRt Gene Set Microarray Testing
gsmoothr Smoothing tools
gss General Smoothing Splines
gstat spatial and spatio-temporal geostatistical modelling, prediction and simulation
gstudio Spatial utility functions from the Dyer laboratory
gsubfn Utilities for strings and function arguments.
gtable Arrange grobs in tables.
gtcorr Calculate efficiencies of group testing algorithms with correlated responses
gte Generalized Turnbull's estimator
gtkDevice Loadable and embeddable gtk device driver for R
gtm Generative topographic mapping
gtools Various R programming tools
gtx Genetics ToolboX
GuardianR Guardian API Wrapper
Guerry Maps, data and methods related to Guerry (1833) "Moral Statistics of France"
GUIDE GUI for DErivatives in R
gumbel Gumbel copula
GUniFrac Generalized UniFrac distances
GUTS GUTS: Fast Calculation of the Likelihood of a Stochastic Survival Model
gvcm.cat Regularized Categorial Effects/Categorial Effect Modifiers/Continuous/Smooth effects in GLMs
gvlma Global Validation of Linear Models Assumptions
GWAF Genome-wide association/interaction analysis and rare variant analysis with family data
GWASExactHW Exact Hardy-Weinburg testing for Genome Wide Association Studies
GWAtoolbox GWAS Quality Control
gwerAM Controlling the genome-wide type I error rate in association mapping experiments
GWG Calculation of probabilities for inadequate and excessive gestational weight gain
gWidgets gWidgets API for building toolkit-independent, interactive GUIs
gWidgets2
gWidgetsRGtk2 Toolkit implementation of gWidgets for RGtk2
gWidgetsrJava Toolkit implementation of gWidgets for rJava
gWidgetstcltk Toolkit implementation of gWidgets for tcltk package
gWidgetsWWW Toolkit implementation of the gWidgets API for use with web pages
GWmodel Geographically weighted models
GWRM GWRM
gwrr Fits geographically weighted regression models with diagnostic tools
GxM
h5r Interface to HDF5 Files
haarfisz Software to perform Haar Fisz transforms
HAC Estimation, simulation and visualization of Hierarchical Archimedean Copulae (HAC)
hacks Convenient R Functions
HadoopStreaming Utilities for using R scripts in Hadoop streaming
halp Show certain type of comments from function bodies as "live-help"
HandTill2001 Multiple Class Area under ROC Curve
HAP.ROR Recursive Organizer (ROR)
hapassoc Inference of trait associations with SNP haplotypes and other attributes using the EM Algorithm
HapEstXXR Multi-locus stepwise regression (MSR)
HAPim HapIM
Haplin Analyzing case-parent triad and/or case-control data with SNP haplotypes
haplo.ccs Estimate Haplotype Relative Risks in Case-Control Data
haplo.stats Statistical Analysis of Haplotypes with Traits and Covariates when Linkage Phase is Ambiguous
HaploSim HaploSim
hapsim Haplotype Data Simulation
HardyWeinberg Graphical tests for Hardy-Weinberg equilibrium
harvestr A Parallel Simulation Framework
hash Full feature implementation of hash/associated arrays/dictionaries
hashFunction A collection of non-cryptographic hash functions
hbim Hill/Bliss Independence Model for Combination Vaccines
hbmem Hierarchical Bayesian Analysis of Recognition Memory
hbsae Hierarchical Bayesian Small Area Estimation
hcc Hidden correlation check
hda Heteroscedastic Discriminant Analysis
HDclassif High Dimensional Supervised Classification and Clustering
hddplot Use known groups in high-dimensional data to derive scores for plots
hdeco Hierarchical DECOmposition of Entropy for Categorical Map Comparisons
hdf5 HDF5
hdlm Fitting High Dimensional Linear Models
HDMD Statistical Analysis Tools for High Dimension Molecular Data (HDMD)
hdrcde Highest density regions and conditional density estimation
HDtweedie
HEAT Health Effects of Air Pollution and Temperature (HEAT)
heatex Heat exchange calculations during physical activity.
heatmap.plus Heatmap with more sensible behavior.
heatmapFit Heatmap Fit Statistic For Binary Dependent Variable Models
heavy Package for outliers accommodation using heavy-tailed distributions
helloJavaWorld Hello Java World
helpr Help for R.
heplots Visualizing Hypothesis Tests in Multivariate Linear Models
hergm Hierarchical Exponential-Family Random Graph Models with Local Dependence
het.test White's Test for Heteroskedasticity
hett Heteroscedastic t-regression
hexbin Hexagonal Binning Routines
hexView Viewing Binary Files
HFWutils csv import, csv export, garbage collection,string matching and passing by reference
hgam High-dimensional Additive Modelling
hglm Hierarchical Generalized Linear Models
HGLMMM Hierarchical Generalized Linear Models
HGNChelper Handy functions for working with HGNC gene symbols and Affymetrix probeset identifiers.
HH Statistical Analysis and Data Display: Heiberger and Holland
HHG Heller-Heller-Gorfine Tests of Independence
hht The Hilbert-Huang Transform: Tools and Methods
HI Simulation from distributions supported by nested hyperplanes
HIBAG HIBAG -- HLA Genotype Imputation with Attribute Bagging
HiddenMarkov Hidden Markov Models
HiDimDA High Dimensional Discriminant Analysis
hier.part Hierarchical Partitioning
hierarchicalDS Functions for performing hierarchical analysis of distance sampling data
hierfstat Estimation and tests of hierarchical F-statistics
hierNet A Lasso for Hierarchical Interactions
HIest Hybrid index estimation
highfrequency highfrequency
highlight Syntax highlighter
HighProbability HighProbability estimates which alternative hypotheses have frequentist or Bayesian probabilities at least as great as a specified threshold, given a list of p-values.
highr Syntax highlighting for R
highriskzone Determining and evaluating high-risk zones
hint Tools for hypothesis testing based on Hypergeometric Intersection distributions
hints Provide hints on what to do next
HiPLARM High Performance Linear Algebra in R
hiPOD hierarchical Pooled Optimal Design
hisemi Hierarchical Semiparametric Regression of Test Statistics
HistData Data sets from the history of statistics and data visualization
histogram Construction of regular and irregular histograms with different options for automatic choice of bins
HistogramTools
hitandrun "Hit and Run" method for sampling uniformly from convex shapes.
hive Hadoop InteractiVE
HiveR 2D and 3D Hive Plots for R
HLMdiag Diagnostic tools for hierarchical (multilevel) linear models
hlr Hidden Logistic Regression
hmeasure The H-measure and other scalar classification performance metrics
Hmisc Harrell Miscellaneous
HMM HMM - Hidden Markov Models
hmm.discnp Hidden Markov models with discrete non-parametric observation distributions.
hmmm hierarchical multinomial marginal models
HMMmix The HMMmixture package
HMP Hypothesis Testing and Power Calculations for Comparing Metagenomic Samples from HMP
HMPTrees Statistical Object Oriented Data Analysis of RDP-based Taxonomic trees from Human Microbiome Data: Modeling, Visualization, and Two-Group Comparison
HMR Flux estimation with static chamber data
hoa
hof More higher order functions for R.
holdem Texas Holdem simulator
Holidays Holiday and halfday data, for use with the TimeWarp package
homals Gifi Methods for Optimal Scaling
homeR Functions useful for building physics
homtest Homogeneity tests for Regional Frequency Analysis
hopach Hierarchical Ordered Partitioning and Collapsing Hybrid (HOPACH)
hot Computation on micro-arrays
HotDeckImputation
Hotelling Hotelling's T-squared test and variants
hotspots Hot spots
howmany A lower bound for the number of correct rejections
HPbayes Heligman Pollard mortality model parameter estimation using Bayesian Melding with Incremental Mixture Importance Sampling
HPO.db A set of annotation maps describing the Human Phenotype Ontology
HPOSim Analysis similarities between HPO terms and phenotypic similarity between genes and between diseases.
HSAUR A Handbook of Statistical Analyses Using R
HSAUR2 A Handbook of Statistical Analyses Using R (2nd Edition)
hSDM hierarchical Bayesian species distribution models
hsicCCA Canonical Correlation Analysis based on Kernel Independence Measures
hsmm Hidden Semi Markov Models
HSROC Joint meta-analysis of diagnostic test sensitivity and specificity with or without a gold standard reference test
HTMLapplets Dynamic visualisation in HTML documents
HTMLUtils Facilitates automated HTML report creation
hts Hierarchical and grouped time series
HTSCluster Clustering high throughput sequencing (HTS) data
HTSDiff
httpRequest Basic HTTP Request
httpuv HTTP and WebSocket server library
httr Tools for working with URLs and HTTP
huge High-dimensional Undirected Graph Estimation
HumMeth27QCReport HumMeth27QCReport: quality control and preprocessing of Illumina's Infinium methylation assays.
HW.pval Testing Hardy-Weinberg Equilibrium for Multiallelic Genes
hwde Models and tests for departure from Hardy-Weinberg equilibrium and independence between loci.
HWEBayes Bayesian investigation of Hardy-Weinberg Equilibrium via estimation and testing.
HWEintrinsic Objective Bayesian Testing for the Hardy-Weinberg Equilibrium Problem
hwriter HTML Writer - Outputs R objects in HTML format
hwriterPlus hwriterPlus: Extending the hwriter Package
hybridHclust Hybrid hierarchical clustering
HybridMC Implementation of the Hybrid Monte Carlo and Multipoint Hybrid Monte Carlo sampling techniques
hydroApps
hydrogeo Groundwater data presentation and interpretation.
hydroGOF Goodness-of-fit functions for comparison of simulated and observed hydrological time series
HydroMe R codes for estimating water retention and infiltration model parameters using experimental data
hydroPSO Particle Swarm Optimisation, with focus on Environmental Models
hydrosanity Graphical user interface for exploring hydrological time series
hydroTSM Time series management, analysis and interpolation for hydrological modelling
HyperbolicDist The hyperbolic distribution
hyperdirichlet A generalization of the Dirichlet distribution
hypergeo The hypergeometric function
hyperSpec Interface for hyperspectral data, i.e. spectra + meta info (spatial, time, concentration, ...)
HyPhy Macroevolutionary phylogentic analysis of species trees and gene trees
hypothesestest Confidence Intervals and Tests of Statistical Hypotheses
hypred Simulation of genomic data in applied genetics
hysteresis
hzar Hybrid Zone Analysis using R
IASD Model selection for index of asymmetry distribution
IAT
ibd INCOMPLETE BLOCK DESIGNS
IBDhaploRtools Functions for the Analysis of IBD Haplo output
ibdreg Regression Methods for IBD Linkage With Covariates
IBDsim Simulation of chromosomal regions shared by family members.
IBHM Approximation using the IBHM method
Iboot Iboot: iterated bootstrap tests and confidence sets.
ibr Iterative Bias Reduction
IBrokers R API to Interactive Brokers Trader Workstation
iBUGS An Interface to WinBUGS/OpenBUGS/JAGS by gWidgets
ic.infer Inequality constrained inference in linear normal situations
IC2 Inequality and Concentration Indices and Curves
ic50 Standardized high-throughput evaluation of cell-based compound screens
icaOcularCorrection Independent Components Analysis (ICA) based artifact correction.
ICC Functions facilitating the estimation of the Intraclass Correlation Coefficient
ICE Iterated Conditional Expectation
ICEbox
ICEinfer Incremental Cost-Effectiveness (ICE) Statistical Inference from Two Unbiased Samples
Icens NPMLE for Censored and Truncated Data
icensmis Study Design and Data Analysis in the presence of error-prone diagnostic tests and self-reported outcomes
iCluster Integrative clustering of multiple genomic data types
iCluster
icomp ICOMP criterion
ICS Tools for Exploring Multivariate Data via ICS/ICA
ICSNP Tools for Multivariate Nonparametrics
idbg
iDEMO integrated degradation models
identity Jacquard Condensed Coefficients of Identity
IDPmisc Utilities of Institute of Data Analyses and Process Design (www.idp.zhaw.ch)
idr Irreproducible discovery rate
ieeeround Functions to set and get the IEEE rounding mode
ifa Independent Factor Analysis
iFad An integrative factor analysis model for drug-pathway association inference
IFP Identifying functional polymorphisms in genetic association studies
ifs Iterated Function Systems
ifultools Insightful Research Tools
ig Package for a General Class of Inverse Gaussian Distributions
iGasso Genetic association tests and utilities
iGenomicViewer Tool for sending interactive bioinformatic heatmaps with tool-tip content.
IgorR
igraph Network analysis and visualization
igraph0 Network analysis and visualization, old, deprecated package.
igraphdata A collection of network data sets for the igraph package
igraphtosonia Convert iGraph graps to SoNIA .son files
iid.test iid-test
IM Orthogonal Moment Analysis
ImageMetrics Facilitates image analysis for social scientists.
Imap Interactive Mapping
imguR Share plots using the imgur.com image hosting service
IMIS Increamental Mixture Importance Sampling
ImpactIV Identifying Causal Effect for Multi-Component Intervention Using Instrumental Variable Method
imprProbEst Minimum distance estimation in an imprecise probability model
imputation imputation
impute impute: Imputation for microarray data
imputeMDR The Multifactor Dimensionality Reduction (MDR) Analysis for Incomplete Data
imputeYn Imputing the last largest censored observation/observations under weighted least squares
inarmix Mixture models for longitudinal count data.
incReg
IndependenceTests Nonparametric tests of independence between random vectors.
indicspecies Studying the statistical relationship between species and groups of sites
ineq Measuring Inequality, Concentration, and Poverty
inetwork Network Analysis and Plotting
InfDim Infine-dimensional model (IDM) to analyse phenotypic variation in growth trajectories.
inference Functions to extract inferential values of a fitted model object
InferenceSMR Inference about the standardized mortality ratio when evaluating the effect of a screening program on survival.
inflection Finds the inflection point of a curve
influence.ME Tools for detecting influential data in mixed effects models
influence.SEM
infochimps An R wrapper for the infochimps.com API services
infoDecompuTE Information Decomposition of Two-phase Experiments
informR R Tools for Creating Sequence Statistics
infotheo Information-Theoretic Measures
infutil Information Utility
IniStatR
INLABMA
inline Inline C, C++, Fortran function calls from R
inlinedocs Convert inline comments to documentation
InPosition Inference Tests for ExPosition
insideRODE insideRODE includes buildin functions with deSolve solver and C/FORTRAN interfaces to nlme, together with compiled codes.
insideRODE
insol Solar Radiation
installr Functions for updating and installing a new version of R and other software - from R
int64 64 bit integer types
intamap procedures for automated interpolation
intamapInteractive procedures for automated interpolation - methods only to be used interactively, not included in intamap package
intcox Iterated Convex Minorant Algorithm for interval censored event data
integrativeME integrative mixture of experts
integrativeMEdata Matched Clinical factors and microarray data (part of integrativeME package)
integrOmics end of integrOmics package
Interact Tests for marginal interactions in a 2 class response model
InteractiveIGraph interactive network analysis and visualization.
interactivity toggle R interactive mode.
intergraph Coercion routines for network data objects in R
Interpol Interpolation of amino acid sequences
Interpol.T
InterVA4
interval Weighted Logrank Tests and NPMLE for interval censored data
intervals Tools for working with points and intervals
IntLik
intpoint linear programming solver by the interior point method and graphically (two dimensions)
intReg
intRegGOF Integrated Regression Goodness of Fit
introgress methods for analyzing introgression between divergent lineages
intsvy International Assessment Data Manager
investr Calibration/Inverse Estimation with Linear and Nonlinear Regression Models in R.
ipdmeta Tools for subgroup analyses with multiple trial data using aggregate statistics
ipfp Fast implementation of the iterative proportional fitting procedure in C
iplots iPlots - interactive graphics for R
IPMpack Builds and analyses Integral Projection Models (IPMs).
ipptoolbox IPP Toolbox
ipred Improved Predictors
IPSUR Introduction to Probability and Statistics Using R
ipw Estimate inverse probability weights.
IQCC Improved Quality Control Charts
iqLearn
IQMNMR Identification and Quantification of Metabolites by Using 1D 1H NMR FID
irace
iRefR iRefIndex Manager
iRegression Regression methods for interval-valued variables
irlba Fast partial SVD by implicitly-restarted Lanczos bidiagonalization
irr Various Coefficients of Interrater Reliability and Agreement
irtoys Simple interface to the estimation and plotting of IRT models
irtProb Utilities and Probability Distributions Related to Multidimensional Person Item Response Models (IRT)
irtrees Estimation of Tree-Based Item Response Models
ISA INTRODUZIONE ALLA STATISTICA APPLICATA con esempi in R
isa2 The Iterative Signature Algorithm
ISBF Iterative Selection of Blocks of Features - ISBF
ISDA.R interval symbolic data analysis for R
isdals Provides datasets for Introduction to Statistical Data Analysis for the Life Sciences
ISIPTA ISIPTA network analysis
ISLR Data for An Introduction to Statistical Learning with Applications in R
ismev An Introduction to Statistical Modeling of Extreme Values
Iso Functions to perform isotonic regression.
isocir Isotonic Inference for Circular data
ISOcodes Selected ISO codes
IsoGene Testing for monotonic relationship between gene expression and doses in a microarray experiment.
isopam Isopam (Clustering)
isopat Calculation of isotopic pattern for a given molecular formula
isotone Active set and generalized PAVA for isotone optimization
IsotopeR Stable isotope analysis
ISOweek Week of the year and weekday according to ISO 8601
iSubpathwayMiner The package can implement the graph-based reconstruction and analyses of the KEGG pathways.
isva Independent Surrogate Variable Analysis
ISwR Introductory Statistics with R
iteRates Parametric rate comparison
iterators Iterator construct for R
iterLap Approximate probability densities by iterated Laplace Approximations
itertools Iterator Tools
itree Tools for classification and regression trees, with an emphasis on interpretability.
its Irregular Time Series
itsmr Time series analysis package for students
IUPS Incorporating Uncertainties in Propensity Scores
iv Information Visualisation with UML and Graphs
ivbma Bayesian Instrumental Variable Estimation and Model Determination via Conditional Bayes Factors
ivivc A data analysis tool for in vitro-in vivo correlation (IVIVC)
iWebPlots Interactive web-based plots
iWeigReg Improved methods for causal inference and missing data problems
iwtp Numerical evaluation willingness to pay based on interval data
jaatha A Fast Parameter Estimation Method for Evolutionary Biology
jackknifeKME Jackknife estimates of Kaplan-Meier estimators or integrals.
JADE JADE and other BSS methods as well as some BSS performance criteria
JASPAR R modules for JASPAR databases: a collection of transcription factor DNA-binding preferences, modeled as matrices.
JavaGD Java Graphics Device
JGL Performs the Joint Graphical Lasso for sparse inverse covariance estimation on multiple classes
JGR JGR - Java GUI for R
jit Just-in-time compiler for the R language
JJcorr Calculates polychorical correlations for several copula families.
JLLprod Nonparametric Estimation of Homothetic and Generalized Homothetic Production Functions
JM Joint Modeling of Longitudinal and Survival Data
JMbayes Joint Modeling of Longitudinal and Time-to-Event Data under a Bayesian Approach
jmec Fit joint model for event and censoring with cluster-level frailties
Jmisc Julian Miscellaneous Function
JMLSD Joint Modeling of Longitudinal and Survival Data - Power Calculation
Johnson Johnson Transformation
JohnsonDistribution Johnson Distribution
joineR Joint modelling of repeated measurements and time-to-event data
jointDiag Joint Approximate Diagonalization of a set of square matrices
JointGLM Joint Modelling of Mean and Dispersion (outdated, see package JointModeling)
JointModeling Joint Modelling of Mean and Dispersion
JointRegBC Joint Modelling of Mixed Correlated Binary and Continuous Responses : A Latent Variable Approach
JOP Joint Optimization Plot
JoSAE Functions for unit-level small area estimators and their variances
jpeg Read and write JPEG images
JPSurv Methods for population-based cancer survival analysis
jtrans Johnson transformation for normality.
JudgeIt JudgeIt: A Program for Evaluating Electoral Systems and Redistricting Plans
Julia Fractal Image Data Generator
jvmr Integration of R, Java, and Scala
KappaGUI GUI for Cohen's and Fleiss' Kappa
kappalab Non-additive measure and integral manipulation functions
kappaSize Sample Size Estimation Functions for Studies of Interobserver Agreement
KappaV Calculates "vectorial Kappa", an index of congruence between patchy mosaics.
kaps K Adaptive Partitioning for Survival data
kBestShortestPaths kbest: Finds K best paths in a given graph.
kcirt
kdetrees Nonparametric method for identifying discordant trees
kedd
kelvin Calculate solutions to the Kelvin differential equation using Bessel functions.
Kendall Kendall rank correlation and Mann-Kendall trend test
kequate The kernel method of test equating
kerdiest Nonparametric kernel estimation of the distribution function. Bandwidth selection and estimation of related functions.
kerfdr semi-parametric kernel-based approach to local fdr estimations
kernelFactory Kernel Factory: An ensemble of kernel Machines
kernelPop Spatially explicit population genetic simulations
kernlab Kernel-based Machine Learning Lab
KernSmooth Functions for kernel smoothing for Wand & Jones (1995)
KernSmoothIRT Nonparametric Item Response Theory
KFAS Kalman Filter and Smoother for Exponential Family State Space Models.
kin.cohort Analysis of kin-cohort studies
kinfit Routines for fitting kinetic models to chemical degradation data
kinship mixed-effects Cox models, sparse matrices, and modeling data from large pedigrees
kinship2 Pedigree functions
kitagawa Spectral response of water wells to harmonic strain and pressure
kknn Weighted k-Nearest Neighbors
klaR Classification and visualization
klausuR Multiple Choice Test Evaluation
klin Linear equations with Kronecker structure
km.ci Confidence intervals for the Kaplan-Meier estimator
kmi Kaplan-Meier multiple imputation for the analysis of cumulative incidence functions in the competing risks setting
Kmisc Miscellaneous functions intended to improve the R coding experience
kml K-means for Longitudinal data
kml3d K-means for joint Longitudinal data
kmlcov
KMsurv Data sets from Klein and Moeschberger (1997), Survival Analysis
knitcitations Citations for knitr markdown files
knitr
knitrBootstrap Knitr Bootstrap framework.
knn knn-gcv
knncat Nearest-neighbor classification with categorical variables
knnFinder Fast Near Neighbour Search
knnflex A more flexible KNN
knnGarden Multi-distance based k-Nearest Neighbors
knnTree k-nn classification with variable selection inside leaves of a tree
knorm Microarray Data From Multiple Biologically Interrelated Experiments
kobe Tools for providing advice for the Tuna Regional Fisheries Management Organisations
kohonen Supervised and unsupervised self-organising maps
kolmim An improved evaluation of Kolmogorov's distribution
KoNLP Korean NLP Package
koRpus An R Package for Text Analysis
Kpart Spline Fitting
kriging Ordinary Kriging
KrigInv Kriging-based Inversion for Deterministic and Noisy Computer Experiments
KRLS Kernel-based Regularized Least Squares (KRLS)
ks Kernel smoothing
kSamples K-Sample Rank Tests and their Combinations
KsPlot Check the power of seveal statistical models.
kst Knowledge Space Theory
ktsolve
ktspair k-Top Scoring Pairs for Microarray Classification
kulife Datasets and functions from the (now non-existing) Faculty of Life Sciences, University of Copenhagen
kza Kolmogorov-Zurbenko Adaptive Filters
kzft Kolmogorov-Zurbenko Fourier Transform and Applications
kzs Kolmogorov-Zurbenko Spatial Smoothing and Applications
l2boost l2boost - Friedman's boosting algorithm for regularized linear regression
labdsv Ordination and Multivariate Analysis for Ecology
label.switching
labeledLoop Labeled Loop
labeling Axis Labeling
labeltodendro Convert labels or tables to a dendrogram
labstatR Libreria del Laboratorio di Statistica con R
laeken Estimation of indicators on social exclusion and poverty
laercio Duncan test, Tukey test and Scott-Knott test.
LaF Fast access to large ASCII files
lago An efficient kernel algorithm for rare target detection and unbalanced classification
laGP
Lahman Sean Lahman's Baseball Database
lambda.r Functional programming in R
Lambda4 Collection of Internal Consistency Reliability Coefficients.
LambertW Analyze and Gaussianize skewed, heavy-tailed data
lancet.iraqmortality Surveys of Iraq Mortality Published in The Lancet
landsat Radiometric and topographic correction of satellite imagery
languageR Data sets and functions with "Analyzing Linguistic Data: A practical introduction to statistics".
LaplacesDemon Complete Environment for Bayesian Inference
LARF LARF: Local Average Response Functions for Estimating Treatment Effects
LargeRegression Large Regressions
lars Least Angle Regression, Lasso and Forward Stagewise
laser Likelihood Analysis of Speciation/Extinction Rates from Phylogenies
lasso2 L1 constrained estimation aka `lasso'
lassoshooting L1 regularized regression (Lasso) solver using the Cyclic Coordinate Descent algorithm aka Lasso Shooting
last.call Utility for returning previous commands as unevaluated calls and the full context of function calls.
latdiag Draws diagrams useful for checking latent scales
latentnet Latent position and cluster models for statistical networks
latentnetHRT Latent position and cluster models for statistical networks
Laterality Functions to calculate common laterality statistics in primatology.
lattice Lattice Graphics
latticeDensity Density estimation and nonparametric regression on irregular regions
latticedl Lattice direct labels
latticeExtra Extra Graphical Utilities Based on Lattice
LatticeKrig Multiresolution Kriging based on Markov random fields
latticist A graphical user interface for exploratory visualisation
lava Linear Latent Variable Models
lava.tobit LVM with censored and binary outcomes
lavaan Latent Variable Analysis
lavaan.survey Complex survey structural equation modeling (SEM)
lawstat An R package for biostatistics, public policy, and law
lazy Lazy Learning for Local Regression
lazyData A LazyData Facility
lazyWeave LaTeX Wrappers for R Users
lbiassurv Length-biased correction to survival curve estimation.
LCA
LCAextend Latent Class Analysis (LCA) with familial dependence in extended pedigrees
lcd Learn Chain graphs via Decomposition
lcda Latent Class Discriminant Analysis
LCFdata Data sets for package ``LMERConvenienceFunctions''
lcmm Estimation of latent class mixed models, joint latent class mixed models and mixed models for curvilinear outcomes
lcmr lcmr package
lda Collapsed Gibbs sampling methods for topic models.
lda.cv Cross-validation for linear discriminate analysis
ldbounds Lan-DeMets Method for Group Sequential Boundaries
LDcorSV Linkage disequilibrium corrected by the structure and the relatedness
ldDesign Design of experiments for detection of linkage disequilibrium
LDdiag Link Function and Distribution Diagnostic Test for Social Science Researchers
LDExplorer Efficient Whole-Genome LD Based Haplotpe Block Recognition
LDheatmap Graphical display of pairwise linkage disequilibria between SNPs
ldlasso LD LASSO Regression for SNP Association Study
LDOD Finding Locally D-optimal optimal designs for some nonlinear and generalized linear models.
ldr Methods for likelihood-based dimension reduction in regression
LDtests Exact tests for Linkage Disequilibrium and Hardy-Weinberg Equilibrium
LeafAngle Fits, plots, and summarizes leaf angle distributions.
LEAPFrOG Likelihood Estimation of Admixture in Parents From Offspring Genotypes
leapp latent effect adjustment after primary projection
leaps regression subset selection
LearnBayes Functions for Learning Bayesian Inference
LearnEDA Functions for Learning Exploratory Data Analysis
leiv Bivariate linear errors-in-variables estimation
LeLogicielR Functions and datasets to accompany the book "Le logiciel R: Maitriser le langage, Effectuer des analyses statistiques" (french)
lemma Laplace approximated EM Microarray Analysis
lessR Less Code, More Results
lestat A package for LEarning STATistics
lfe Linear Group Fixed Effects
lfstat Calculation of Low Flow Statistics for daily stream flow data
lga Tools for linear grouping analysis (LGA)
lgcp Log-Gaussian Cox Process
LGS simulating Linkage Group Selection (LGS)
lgtdl A set of methods for longitudinal data objects.
lhs Latin Hypercube Samples
libamtrack Computational routines for proton and ion radiotherapy
LiblineaR Linear Predictive Models Based On The Liblinear C/C++ Library.
LICORS Light Cone Reconstruction of States - Predictive State Estimation From Spatio-Temporal Data
LICurvature Sensitivity Analysis for Case Weight in Normal Linear Regression
lifecontingencies A package to perform actuarial mathematics for life contingencies insurances
LifeTables A package to implement HMD model life table system
LIHNPSD Poisson Subordinated Distribution
likelihood
likeLTD
likert
LIM Linear Inverse Model examples and solution methods.
limitplot Jitter/CI Plot with Ordered Points Below the Limit of Detection
limSolve Solving Linear Inverse Models
LinearizedSVR Linearized Support Vector Regression
lineup Lining up two sets of measurements
linkcomm Tools for Generating, Visualizing, and Analysing Link Communities in Networks
linLIR linear Likelihood-based Imprecise Regression
linprog Linear Programming / Optimization
lint Tools to check R code style
liso Fitting lasso penalised additive isotone models
lisp
lisrelToR Import output from LISREL into R
list Statistical Methods for the Item Count Technique and List Experiment
LIStest Longest Increasing Subsequence Independence Test
ljr Logistic Joinpoint Regression
LLAhclust Hierarchical clustering of variables or objects based on the likelihood linkage analysis method
llama Leveraging Learning to Automatically Manage Algorithms
LLdecomp Decomposes a set of variables into cliques and separators.
lle Locally linear embedding
LLN Learning with latent networks
lm.br
lmbc Linear Model Bias Correction for RNA-Seq Data
lme4 Linear mixed-effects models using Eigen and S4
lmec Linear Mixed-Effects Models with Censored Responses
lmeNB Fit negative binomial mixed-effect regression model.
lmeNBBayes Sample from the posterior of the negative binomial mixed-effect regression model. The random effect is modeled with DP mixture of beta distributions.
LMERConvenienceFunctions A suite of functions to back-fit fixed effects and forward-fit random effects, as well as other miscellaneous functions.
lmerTest Tests for random and fixed effects for linear mixed effect models (lmer objects of lme4 package).
lmeSplines Add smoothing spline modelling capability to nlme.
LMest Fit Latent Markov models in basic versions
lmf Functions for estimation and inference of selection in age-structured populations
LMGene LMGene Software for Data Transformation and Identification of Differentially Expressed Genes in Gene Expression Arrays
lmm Linear mixed models
lmmfit Goodness-of-fit-measures for linear mixed models with one-level-grouping
lmmlasso Linear mixed-effects models with Lasso
lmodel2 Model II Regression
lmom L-moments
lmomco L-moments, Censored L-moments, Trimmed L-moments, L-comoments, and Many Distributions
Lmoments L-moments and quantile mixtures
lmomRFA Regional frequency analysis using L-moments
lmPerm Permutation tests for linear models
lmSupport Support for Linear Models
lmtest Testing Linear Regression Models
LN3GV LN3GV
lnMLE Logistic-Normal Model for Clustered Binary (Binomial) Data
localdepth Local Depth
localgauss Estimating local Gaussian parameters
locfdr Computes local false discovery rates
locfit Local Regression, Likelihood and Density Estimation.
locits
Lock5Data Datasets for "Statistics: UnLocking the Power of Data"
locpol Kernel local polynomial regression
lodplot Plot a genome scan
log10 Decimal log plotting in two and three dimensions
log4r A simple logging system for R, based on log4j.
LogConcDEAD Log-concave Density Estimation in Arbitrary Dimensions
logconcens Maximum likelihood estimation of a log-concave density based on censored data
logcondens Estimate a Log-Concave Probability Density from iid Observations
logcondens.mode Compute MLE of Log-Concave Density on R with Fixed Mode, and Perform Inference for the Mode.
logcondiscr Estimate a Log-Concave Probability Mass function from Discrete i.i.d. Observations
logging R logging package
LogicForest Logic Forest
LogicReg Logic Regression
logilasso Analysis of sparse contingency tables with penalization approaches
logistf Firth's bias reduced logistic regression
logistiX Exact logistic regression including Firth correction
LogitNet Infer network based on binary arrays using regularized logistic regression
logitnorm Functions for the logitnormal distribution.
loglognorm Double log normal distribution functions
logmult Log-multiplicative models, including association models
LogrankA Logrank Test for Aggregated Survival Data
logregperm Inference in Logistic Regression
logspline Logspline density estimation routines
lokern Kernel Regression Smoothing with Local or Global Plug-in Bandwidth
lomb
longCatEDA Package for Plotting Categorical Longitudinal and Time-Series Data
longclust Model-Based Clustering and Classification for Longitudinal Data
longitudinal Analysis of Multiple Time Course Data
longitudinalData Longitudinal Data
longmemo Statistics for Long-Memory Processes (Jan Beran) -- Data and Functions
longpower Sample size calculations for longitudinal data
longRPart Recursive partitioning of longitudinal data using mixed-effects models
loop loop decomposition of weighted directed graphs for life cycle analysis, providing flexbile network plotting methods, and analyzing food chain properties in ecology
LoopAnalyst A collection of tools to conduct Levins' Loop Analysis
lordif Logistic Regression Differential Item Functioning using IRT
lorec LOw Rand and sparsE Covariance matrix estimation
lossDev Robust Loss Development Using MCMC
LOST Missing morphometric data simulation and estimation
LowRankQP Low Rank Quadratic Programming
lpc Lassoed principal components for testing significance of features
LPCM Local principal curve methods
lpint Local polynomial esitmators of intensity function or its derivatives
LPmerge Merging linkage maps by linear programming
lpridge Local Polynomial (Ridge) Regression
lpSolve Interface to Lp_solve v. 5.5 to solve linear/integer programs
lpSolveAPI R Interface for lp_solve version 5.5.2.0
lqa Penalized Likelihood Inference for GLMs
lqmm Linear Quantile Mixed Models
lrmest
LS2W Locally stationary two-dimensional wavelet process estimation scheme
lsa Latent Semantic Analysis
LSC Local Statistical Complexity - Automatic Pattern Discovery in Spatio-Temporal Data
LSD Lots of Superior Depictions
lsdv Fixed effect panel data regression
lshorth The Length of the Shorth
lsmeans Least-squares means
LSMonteCarlo
lspls LS-PLS Models
lsr Companion package to "Learning Statistics with R"
lss the accelerated failure time model to right censored data based on least-squares principle
ltm Latent Trait Models under IRT
ltmle Longitudinal Targeted Maximum Likelihood Estimation
LTPDvar LTPD and AOQL plans for acceptance sampling inspection by variables
LTR Perform LTR analysis on microarray data
ltsa Linear time series analysis
ltsbase Ridge and Liu Estimates based on LTS (Least Trimmed Squares) Method
ltsk local time space kriging
lubridate Make dealing with dates a little easier
luca Likelihood inference from case-control data Under Covariate Assumptions (LUCA)
Luminescence Package for Luminescence Dating data analysis
LVMMCOR A Latent Variable Model for Mixed Continuous and Ordinal Responses
lvplot Level value plots for R
LVQTools Learning Vector Quantization Tools
lxb Fast LXB file reader
lymphclon Accurate Estimation of Clonal Coincidences and Abundances from Biological Replicates
M3 Reading M3 files
maanova Tools for analyzing Micro Array experiments
MAc Meta-Analysis with Correlations
MAclinical Class prediction based on microarray data and clinical parameters
MAd Meta-Analysis with Mean Differences
mada Meta-Analysis of Diagnostic Accuracy (mada)
MADAM This package provides some basic methods for meta-analysis
madsim A Flexible Microarray Data Simulation Model
Maeswrap Wrapper functions for MAESTRA/MAESPA.
magic create and investigate magic squares
magicaxis Pretty scientific plotting with minor-tick and log minor-tick support
magma Matrix Algebra on GPU and Multicore Architectures
magnets Simulate micro-magnets dynamics
mail Sending Email Notifications from R
MAINT.Data Model and Analize Interval Data
makeProject Creates an empty package framework for the LCFD format
makeR
makesweave Literate Programming with Make and Sweave
malaria.em
MALDIquant Quantitative Analysis of Mass Spectrometry Data
MALDIquantForeign Import/Export routines for MALDIquant
mallet A wrapper around the Java machine learning tool MALLET
MAMA Meta-Analysis of MicroArray
MAMS Designing Multi-Arm Multi-Stage Studies
MAMSE Calculation of Minimum Averaged Mean Squared Error (MAMSE) weights.
Mangrove Risk prediction on trees
Map2NCBI
mapdata Extra Map Databases
MapGAM Mapping Smoothed Odds Ratios from Individual-Level Data
mapLD Linkage Disequilibrium Mapping
MAPLES Smoothed age profile estimation
mapplots Data visualisation on maps
mapproj Map Projections
mapReduce mapReduce - flexible mapReduce algorithm for parallel computation
maps Draw Geographical Maps
maptools Tools for reading and handling spatial objects
maptree Mapping, pruning, and graphing tree models
mAr Multivariate AutoRegressive analysis
MAR1 Multivariate Autoregressive Modeling for Analysis of Community Time-Series Data
mar1s Multiplicative AR(1) with Seasonal Processes
marelac Tools for Aquatic Sciences
marelacTeaching Datasets and tutorials for use in aquatic sciences
marg Approximate marginal inference for regression-scale models
margie Log Marginal Likelihood of Gaussian Mixture
marginalmodelplots Marginal Mean Model Plots
marginTree marginTree: margin trees for high-dimensional classification
margLikArrogance Marginal Likelihood Computation via Arrogance Sampling
markdown Markdown rendering for R
marked R Code for mark-recapture analysis
MarkedPointProcess Analysis of Marks of Marked Point Processes
markerSearchPower Power calculation for marker detection strategies in Genome-wide Association Studies
maRketSim Market simulator for R
markovchain
marmap Import, plot and analyze bathymetric and topographic data
marqLevAlg An algorithm for least-squares curve fitting
MARSS Multivariate Autoregressive State-Space Modeling
MASS Support Functions and Datasets for Venables and Ripley's MASS
MASSI
MASSTIMATE Body Mass Estimation Equations for Vertebrates
MasterBayes ML and MCMC Methods for Pedigree Reconstruction and Analysis
MAT Multidimensional Adaptive Testing (MAT)
Matching Multivariate and Propensity Score Matching with Balance Optimization
MatchIt MatchIt: Nonparametric Preprocessing for Parametric Casual Inference
mathgraph Directed and undirected graphs
maticce Mapping Transitions in Continuous Character Evolution
matie Measuring Association and Testing Independence Efficiently
matlab MATLAB emulation package
Matrix Sparse and Dense Matrix Classes and Methods
matrixcalc Collection of functions for matrix calculations
MatrixEQTL Matrix eQTL: Ultra fast eQTL analysis via large matrix operations
MatrixModels Modelling with Sparse And Dense Matrices
matrixpls
matrixStats Methods that apply to rows and columns of a matrix
MATTOOLS Modern Calibration Functions for the Modern Analog Technique (MAT)
MAVTgsa
MaXact Exact max-type Cochran-Armitage trend test(CATT)
maxent Low-memory Multinomial Logistic Regression with Support for Text Classification
maxLik Maximum Likelihood Estimation
maxlike Model species distributions by estimating the probability of occurrence using presence-only data.
maxLinear Conditional Samplings for Max-Linear Models
maxstat Maximally Selected Rank Statistics
MBA Multilevel B-spline Approximation
MBCluster.Seq Model-Based Clustering for RNA-seq Data
MBESS MBESS
MBI (M)ultiple-site (B)iodiversity (I)ndices Calculator
mblm Median-Based Linear Models
MBmca Nucleic Acid Melting Curve Analysis on Microbead Surfaces with R
mbmdr Model Based Multifactor Dimensionality Reduction
mboost Model-Based Boosting
mc2d Tools for Two-Dimensional Monte-Carlo Simulations
MCAPS MCAPS data and results
mcbiopi Matrix Computation Based Identification Of Prime Implicants
mcclust Process an MCMC Sample of Clusterings
MCE Tools for evaluating Monte Carlo Error
mcga Machine coded genetic algorithms for real-valued optimization problems
mcgibbsit Warnes and Raftery's MCGibbsit MCMC diagnostic
mcGlobaloptim
mchof multicore higher-order functions
MChtest Monte Carlo hypothesis tests with Sequential Stopping
mcIRT IRT models for multiple choice items (mcIRT)
MCLIME Simultaneous Estimation of the Regression Coefficients and Precision Matrix
mcll Monte Carlo Local Likelihood Estimation
mclogit Mixed Conditional Logit
mclust Normal Mixture Modeling for Model-Based Clustering, Classification, and Density Estimation
mclust02 Model-based cluster analysis (older version)
mcmc Markov Chain Monte Carlo
MCMC.qpcr Bayesian analysis of qRT-PCR data
MCMCglmm MCMC Generalised Linear Mixed Models
MCMChybridGP Hybrid Markov chain Monte Carlo using Gaussian Processes
MCMCpack Markov chain Monte Carlo (MCMC) Package
mcmcplots Create Plots from MCMC Output
mcmcse Monte Carlo Standard Errors for MCMC
MCMCtGARCH MCMCtGARCH package
MCMCtGARCHM MCMCtGARCHM package
MCMCtNARCH MCMCtNARCH package
mco Multi criteria optimization algorithms and related functions
Mcomp Data from the M-competitions
MConjoint Conjoint Analysis through Averaging of Multiple Analyses
MCPAN Multiple comparisons using normal approximation
McParre Run a Regenerative Markov chain in Parallel on a Cluster
mcpd Tools to analyse and use passport data for biological collections.
MCPerm A Monte Carlo permutation method for multiple test correlation
MCPMod Design and Analysis of Dose-Finding Studies (see also DoseFinding package)
mcprofile Multiple Contrast Profiles
mcr Method Comparison Regression
mcsm Functions for Monte Carlo Methods with R
McSpatial
MCUSUM Multivariate Cumulative Sum (MCUSUM) Control Chart
mda Mixture and flexible discriminant analysis
MDD Minimum Detectable Difference Calculations
mded Measuring the difference between two empirical distributions
MDM Multinomial Diversity Model
MDPtoolbox Markov Decision Processes toolbox
MDR Detect gene-gene interactions using multifactor dimensionality reduction
MDSGUI A GUI for interactive MDS in R
meboot Maximum Entropy Bootstrap for Time Series
mecdf Multivariate Empirical Cumulative Distribution Functions
medAdherence Medication Adherence: Commonly Used Definitions
mederrRank Bayesian Methods for Identifying the Most Harmful Medication Errors
mediation R Package for Causal Mediation Analysis
MeDiChI MeDiChI ChIP-chip deconvolution library
MeDiChISeq
MedOr Median Ordering Statistical R package
medSTC A max-margin supervised Sparse Topical Coding Model
MEET MEET: Motif Elements Estimation Toolkit
mefa Multivariate Data Handling in Ecology and Biogeography
mefa4 Multivariate Data Handling with S4 Classes and Sparse Matrices
meifly Interactive model exploration using GGobi
melody Statistical Methods for the Quantitative Analysis of Song Spectrograms
mem Moving Epidemics Method R Package.
memisc Tools for Management of Survey Data, Graphics, Programming, Statistics, and Simulation
memoise Memoise functions
MEMSS Data sets from Mixed-effects Models in S
memuse Estimate the memory usage of dense, in-core, numeric objects.
MergeGUI A GUI for Merging Datasets in R
merror Accuracy and Precision of Measurements
MESS Miscellaneous esoteric statistical scripts
meta Meta-Analysis with R
MetABEL meta-analysis of genome-wide SNP association results
MetabolAnalyze Probabilistic latent variable models for metabolomic data.
metabolomics A collection of functions for analysing metabolomics data
Metabonomic GUI for Metabonomic Analysis
metacom Analysis of the 'elements of metacommunity structure'
metacor Meta-analysis of correlation coefficients
Metadata Collates Metadata for Climate Surface Stations
MetaDE MetaDE: Microarray meta-analysis for differentially expressed gene detection
metafor Meta-Analysis Package for R
metagen Generalised Inference in the Random Effects Meta Regression Model
metaLik Likelihood inference in meta-analysis and meta-regression models.
metaMA Meta-analysis for MicroArrays
metamisc Diagnostic and prognostic meta analysis (metamisc)
MetaPath Perform the Meta-Analysis for Pathway Enrichment analysis (MAPE).
MetaPCA MetaPCA: Meta-analysis in the Dimension Reduction of Genomic data
MetaQC MetaQC: Objective Quality Control and Inclusion/Exclusion Criteria for Genomic Meta-Analysis
MetaSKAT Meta analysis for SNP-set (Sequence) Kernel Association Test
metatest Fit and test metaregression models
meteogRam Tools for plotting meteograms
Meth27QC Meth27QC: sample quality analysis, and sample control analysis
MethComp Functions for analysis of agreement in method comparison studies.
Metrics Evaluation metrics for machine learning
metRology Support for metrological applications
metrumrg Pharmacometric tools for data preparation, modeling, simulation, and reporting
mets Analysis of Multivariate Event Times
MetSizeR
MEWMA Multivariate Exponentially Weighted Moving Average (MEWMA) Control Chart
MExPosition Multi-table ExPosition
MF
MFDA Model Based Functional Data Analysis
MFDF Modeling Functional Data in Finance
MFHD
mFilter Miscellaneous time series filters
mfp Multivariable Fractional Polynomials
mfr Minimal Free Resolutions of Graph Edge Ideals
MFSAS Creation and Evaluation of Multilevel Fixed and Sequential Sampling Plans
mgcv Mixed GAM Computation Vehicle with GCV/AIC/REML smoothness estimation
MGLM
mgpd mgpd: Functions for multivariate generalized Pareto distribution (MGPD of Type II)
mgraph
MHadaptive General Markov Chain Monte Carlo for Bayesian Inference using adaptive Metropolis-Hastings sampling
mhsmm Parameter estimation and prediction for hidden Markov and semi-Markov models for data with multiple observation sequences.
mht Multiple Hypotheses Testing For Variable Selection
mhurdle Estimation of models with limited dependent variables
mi Missing Data Imputation and Model Checking
mice Multivariate Imputation by Chained Equations
micEcon Microeconomic Analysis and Modelling
micEconAids Demand Analysis with the Almost Ideal Demand System (AIDS)
micEconCES Analysis with the Constant Elasticity of Scale (CES) function
micEconSNQP Symmetric Normalized Quadratic Profit Function
MiClip A Model-based Approach to Identify Binding Sites in CLIP-Seq Data
microbenchmark Sub microsecond accurate timing functions.
MicroDatosEs
micromap Linked Micromap Plots
micromapST Linked Micromap Plots for U. S. States
MicroStrategyR MicroStrategyR Package
midasr
MIfuns Pharmacometric tools for data preparation, modeling, simulation, and reporting
MigClim Implementing dispersal into species distribution models
migest Useful R code for the Estimation of Migration
migration.indices Migration indices
migui Graphical User Interface of the mi Package
MImix Mixture summary method for multiple imputation
mimR A package for graphical modelling in R
MindOnStats Data sets included in Utts and Heckard's Mind on Statistics
minerva minerva: Maximal Information-Based Nonparametric Exploration R package for Variable Analysis
minet Mutual Information NETworks
Miney Implementation of the Well-Known Game to Clear Bombs from a Given Field (Matrix)
miniGUI tktcl quick and simple function GUI.
minimax Minimax distribution family
minpack.lm R interface to the Levenberg-Marquardt nonlinear least-squares algorithm found in MINPACK, plus support for bounds
minPtest Gene region-level testing procedure for SNP data, using the min P test resampling approach
minqa Derivative-free optimization algorithms by quadratic approximation
minxent Entropy Optimization Distributions
miP Multiple Imputation Plots
MIPHENO Mutant Identification through Probabilistic High throughput Enabled NOrmalization
miRada MicroRNA Microarray Data Analysis
mirf MULTIPLE IMPUTATION AND RANDOM FORESTS FOR UNOBSERVABLE PHASE, HIGH-DIMENSIONAL DATA
mirt Multidimensional Item Response Theory
miRtest combined miRNA- and mRNA-testing
MISA Bayesian Model Search and Multilevel Inference for SNP Association Studies
misc3d Miscellaneous 3D Plots
miscF Miscellaneous Functions
miscFuncs Miscellaneous Useful Functions
MiscPsycho Miscellaneous Psychometric Analyses
miscTools Miscellaneous Tools and Utilities
missForest Nonparametric Missing Value Imputation using Random Forest
MissingDataGUI A GUI for Missing Data Exploration
missMDA Handling missing values with/in multivariate data analysis (principal component methods)
MissMech Testing Homoscedasticity, Multivariate Normality, and Missing Completely at Random
MiST Mixed effects Score Test for continuous outcomes
mistat
mistral Methods in Structural Reliability
MitISEM Mixture of Student t Distributions using Importance Sampling and Expectation Maximization
mitools Tools for multiple imputation of missing data
mix Estimation/multiple Imputation for Mixed Categorical and Continuous Data
mixAK Multivariate normal mixture models and mixtures of generalized linear mixed models including model based clustering
mixcat Mixed effects cumulative link and logistic regression models
mixdist Finite Mixture Distribution Models
mixedQF Estimator with Qudratics Forms in Mixeds Models
mixer Random graph clustering
mixexp Design and analysis of mixture experiments
mixfdr Computes false discovery rates and effect sizes using normal mixtures
mixlow mixlow method for assessing drug synergism
MixMAP Implements the MixMAP algorithm
MixMod Analysis of Mixed Models
mixOmics Omics Data Integration Project
mixPHM Mixtures of proportional hazard models.
mixRasch Mixture Rasch Models with JMLE
mixreg Functions to fit mixtures of regressions.
mixsep Forensic Genetics DNA Mixture Separation
MixSim Simulating Data to Study Performance of Clustering Algorithms
mixsmsn Fitting finite mixture of scale mixture of skew-normal distributions .
mixstock functions for mixed stock analysis
mixtools Tools for analyzing finite mixture models
mixture Mixture Models for Clustering and Classification
MixtureInf Inference for Finite Mixture Models
mizer
mkin Routines for fitting kinetic models with one or more state variables to chemical degradation data
MKLE Maximum kernel likelihood estimation.
MKmisc Miscellaneous Functions from M. Kohl
mkssd Efficient multi-level k-circulant supersaturated designs
mlbench Machine Learning Benchmark Problems
MLCM Maximum Likelihood Conjoint Measurement
mlCopulaSelection Copula selection and fitting using maximum likelihood
MLDA Methylation Linear Discriminant Analysis (MLDA)
mlDNA Machine Learning-based Differential Network Analysis of Transcriptome Data
MLDS Maximum Likelihood Difference Scaling
mlearning Machine learning algorithms with unified interface and confusion matrices
MLEcens Computation of the MLE for bivariate (interval) censored data
mlegp Maximum Likelihood Estimates of Gaussian Processes
MLEP Maximum likelihood estimate of penetrance parameters
mleur Maximum likelihood unit root test
mlgt Multi-Locus Geno-Typing
mlica Independent Component Analysis using Maximum Likelihood
mlica2 Independent Component Analysis using Maximum Likelihood
mlmmm ML estimation under multivariate linear mixed models with missing values
mlmRev Examples from Multilevel Modelling Software Review
mlogit multinomial logit model
mlogitBMA Bayesian Model Averaging for Multinomial Logit Models
MLPAstats MLPA analysis to detect gains and loses in genes
mlPhaser Multi-Locus Haplotype Phasing
mlr
MLRMPA
MM The multiplicative multinomial distribution
mmand Mathematical Morphology in Any Number of Dimensions
mmap Map Pages of Memory
mmcm Modified Maximum Contrast Method
mmds
mmeln MMELN : Estimation of multinormal mixture distribution.
mmeta Multivariate Meta-Analysis Using Sarmanov Beta Prior Distributions
MMG Mixture Model on Graphs
MMIX Model selection uncertainty and model mixing
mmlcr Mixed-Mode Latent Class Regression
mmm an R package for analyzing multivariate longitudinal data with multivariate marginal models
mmm2 Multivariate marginal models with shared regression parameters
mmod
MMS Fixed effects Selection in Linear Mixed Models
MMST DATASETS FROM MMST
MNM Multivariate Nonparametric Methods. An Approach Based on Spatial Signs and Ranks
mnormt The multivariate normal and t distributions
MNP R Package for Fitting the Multinomial Probit Model
mnspc Multivariate Nonparametric Statistical Process Control
mobForest
Mobilize Mobilize plots and functions
moc GENERAL NONLINEAR MIXTURES OF CURVES
MOCCA Multi-objective optimization for collecting cluster alternatives
Modalclust Hierarchical Modal Clustering
modeest Mode Estimation
modehunt Multiscale Analysis for Density Functions
modelcf Modeling physical computer codes with functional outputs using clustering and dimensionality reduction
modelfree Model-free estimation of a psychometric function
ModelGood Validation of risk prediction models
ModelMap Creates Random Forest and Stochastic Gradient Boosting Models, and applies them to GIS .img files to build detailed prediction maps.
modeltools Tools and Classes for Statistical Models
modiscloud R tools for processing Level 2 Cloud Mask products from MODIS
MODISTools MODIS Subsetting Tools
modTempEff Modelling temperature effects using time series data
moduleColor Basic module functions
MOJOV Mojo Variants: Rare Variants analysis
mokken Mokken Scale Analysis in R
mombf Moment and Inverse Moment Bayes factors
moments Moments, cumulants, skewness, kurtosis and related tests
Momocs Shape Analysis of Outlines
mondate Keep track of dates in terms of months
MonetDB.R Connect MonetDB to R
monmlp Monotone multi-layer perceptron neural network
monomvn Estimation for multivariate normal and Student-t data with monotone missingness
MonoPoly Functions to fit monotone polynomials
monoProc strictly monotone smoothing procedure
monreg Nonparametric monotone regression
moonsun Basic astronomical calculations with R
mopsocd MOPSOCD: Multi-objective Particle Swarm Optimization with Crowding Distance
Morpho Calculations and visualisations related to Geometric Morphometrics
MorseGen
MortalitySmooth Smoothing and forecasting Poisson counts with P-splines
mosaic Project MOSAIC (mosaic-web.org) statistics and mathematics teaching utilities
mosaicManip Project MOSAIC (mosaic-web.org) manipulate examples.
mota Mean Optimal Transformation Approach
motmot Models of Trait Macroevolution on Trees
moult Models for Analysing Moult in Birds
move Visualizing and analyzing animal track data
movMF Mixtures of von Mises-Fisher Distributions
mpa CoWords Method
mpc MPC - Multiple Precision Complex Library
MPCI Multivariate Process Capability Indices (MPCI)
MPDiR Data sets and scripts for Modeling Psychophysical Data in R
MPINet The package can implement the network-based metabolite pathway identification of pathways.
MplusAutomation Automating Mplus Model Estimation and Interpretation
mpm Multivariate Projection Methods
mpMap Multi-parent RIL genetic analysis
mpmcorrelogram Multivariate Partial Mantel Correlogram
mpmi
mpoly Symbolic computation and more with multivariate polynomials
mprobit Multivariate probit model for binary/ordinal response
MPSEM
mpt Multinomial Processing Tree (MPT) Models
MPTinR Analyze Multinomial Processing Tree Models
MPV Data Sets from Montgomery, Peck and Vining's Book
mQTL
mr Marginal regresson models for dependent data
mra Analysis of Mark-Recapture data
mratios Inferences for ratios of coefficients in the general linear model
MRCE Multivariate regression with covariance estimation
MRCV Methods for Analyzing Multiple Response Categorical Variables (MRCVs)
mrdrc Model-robust concentration-response analysis
mrds Mark-Recapture Distance Sampling (mrds)
mritc MRI tissue classification.
mRm An R package for conditional maximum likelihood estimation in mixed Rasch models.
MRMR
mRMRe R package for parallelized mRMR ensemble feature selection
mrp
mrpdata
mrt Wright & London's Modern Regression Techniques
MRwarping
msap Statistical analysis for Methylation-sensitive Amplification Polymorphism data
msarc Draws diagrams (mis)representing the results of mass spec experiments
MsatAllele Visualizes the scoring and binning of microsatellite fragment sizes
msBreast Protein Mass Spectra Dataset from a Breast Cancer Study
MSBVAR Markov-Switching, Bayesian, Vector Autoregression Models
msDilution Protein Mass Spectra Dataset from a Dilution Experiment
mseapca Metabolite set enrichment analysis for factor loading in principal component analysis
MSeasy Preprocessing of Gas Chromatography-Mass Spectrometry (GC-MS) data
MSeasyTkGUI MSeasy Tcl/Tk Graphical User Interface
mseq Modeling non-uniformity in short-read rates in RNA-Seq data
MSG Data and functions for the book Modern Statistical Graphics
msgl High dimensional multiclass classification using sparse group lasso
msgpackR A library to serialize or unserialize data in MessagePack format
msgps Degrees of freedom of elastic net, adaptive lasso and generalized elastic net
msir Model-based Sliced Inverse Regression
msm Multi-state Markov and hidden Markov models in continuous time
msme Functions and Datasets for "Methods of Statistical Model Estimation".
mspath Multi-state Path-Dependent Models in Discrete Time
msProcess Protein Mass Spectra Processing
msProstate Protein Mass Spectra Dataset from a Prostate Cancer Study
MSQC Multivariate Statistical Quality Control
msr Morse-Smale approximation, regression and visualization
msSurv Nonparametric Estimation for Multistate Models
mstate Data preparation, estimation and prediction in multi-state models
MSToolkit The MSToolkit library for clinical trial design
MSVAR Markov Switching VAR
MSwM Fitting Markov Switching Models
mtcreator Creating MAGE-TAB files using mtcreator
mtsc Multivariate Timeseries Clusters