A B C D E F G H I J K L M N O P Q R S T U V W X Y Z

a4 | Automated Affymetrix Array Analysis Umbrella Package |

a4Base | Automated Affymetrix Array Analysis Base Package |

a4Classif | Automated Affymetrix Array Analysis Classification Package |

a4Core | Automated Affymetrix Array Analysis Core Package |

a4Preproc | Automated Affymetrix Array Analysis Preprocessing Package |

a4Reporting | Automated Affymetrix Array Analysis Reporting Package |

ABarray | Microarray QA and statistical data analysis for Applied Biosystems Genome Survey Microrarray (AB1700) gene expression data. |

abc | Tools for Approximate Bayesian Computation (ABC) |

abcdeFBA | ABCDE_FBA: A-Biologist-Can-Do-Everything of Flux Balance Analysis with this package. |

abd | The Analysis of Biological Data |

abind | Combine multi-dimensional arrays |

abmi | Data Processing and Analysis for the Alberta Biodiversity Monitoring Institute |

abmiOld | Data Processing and Analysis for the Alberta Biodiversity Monitoring Institute |

abn | Data Modelling with Additive Bayesian Networks |

AcceptanceSampling | Creation and evaluation of Acceptance Sampling Plans |

ACCLMA | ACC & LMA Graph Plotting |

Ace | Assay-based Cross-sectional Estimation of incidence rates |

acepack | ace() and avas() for selecting regression transformations |

acer | The ACER Method for Extreme Value Estimation |

aCGH | Classes and functions for Array Comparative Genomic Hybridization data. |

aCGH.Spline | Robust spline interpolation for dual color array comparative genomic hybridisation data |

Acinonyx | iPlots eXtreme |

ACME | Algorithms for Calculating Microarray Enrichment (ACME) |

ACNE | Affymetrix SNP probe-summarization using non-negative matrix factorization |

acs | Download and manipulate data from the US Census American Community Survey |

Actigraphy | Actigraphy Data Analysis |

actogram | Actogram plots |

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 |

ADaCGH2 | Analysis of data from aCGH experiments using parallel computing and ff objects |

adagio | Discrete and Global Optimization Routines |

AdaptFit | Adaptive Semiparametic Regression |

AdaptFitOS | Adaptive Semiparametric Regression with Simultaneous Confidence Bands |

adaptivetau | Tau-leaping stochastic simulation |

adaptMCMC | Implementation of a generic adaptive Monte Carlo Markov Chain sampler |

adaptTest | Adaptive two-stage tests |

addendum | Things that R needs for day to day use |

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. |

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. |

adme16cod.db | GE CodeLink ADME Rat 16-Assay Bioarray annotation data (chip adme16cod) |

AdMit | Adaptive Mixture of Student-t distributions |

ads | Spatial point patterns analysis |

adSplit | Annotation-Driven Clustering |

AEM | Tools to construct Asymmetric eigenvector maps (AEM) spatial variables |

AER | Applied Econometrics with R |

afc | Calculate afc |

afe | Analysis of Factorial Experiments |

afex | Analysis of Factorial Experiments |

affxparser | Affymetrix File Parsing SDK |

affy | Methods for Affymetrix Oligonucleotide Arrays |

affycomp | Graphics Toolbox for Assessment of Affymetrix Expression Measures |

AffyCompatible | Affymetrix GeneChip software compatibility |

affycompData | affycomp data |

affyContam | structured corruption of affymetrix cel file data |

affycoretools | Functions useful for those doing repetitive analyses with Affymetrix GeneChips. |

affydata | Affymetrix Data for Demonstration Purpose |

AffyExpress | Affymetrix Quality Assessment and Analysis Tool |

affyILM | Linear Model of background subtraction and the Langmuir isotherm |

affyio | Tools for parsing Affymetrix data files |

affylmGUI | GUI for affy analysis using limma package |

AffymetrixDataTestFiles | Affymetrix data files (CEL, CDF, CHP, EXP, PSI) for testing |

affyPara | Parallelized preprocessing methods for Affymetrix Oligonucleotide Arrays |

affypdnn | Probe Dependent Nearest Neighbours (PDNN) for the affy package |

affyPLM | Methods for fitting probe-level models |

affyQCReport | QC Report Generation for affyBatch objects |

AffyRNADegradation | Analyze and correct probe positional bias in microarray data due to RNA degradation |

AffyTiling | Easy extraction of individual probes in Affymetrix tiling arrays |

AFLP | Analysis of AFLP data |

afmtools | Estimation, Diagnostic and Forecasting Functions for ARFIMA models |

africa | Another Fast R algorithm for Independent Component Analysis |

aftgee | Accelerated Failure Time Model with Generalized Estimating Equations |

ag.db | Affymetrix Arabidopsis Genome Array annotation data (chip ag) |

agcdf | agcdf |

AGD | Analysis of Growth Data |

AGDEX | Agreement of Differential Expression Analysis |

ageprior | Prior distributions for molecular dating |

aggrisk | Estimate individual level risk using individual case data and spatially aggregated control data |

Agi4x44PreProcess | PreProcessing of Agilent 4x44 array data |

agilp | Extracting and preprocessing Agilent express arrays |

AgiMicroRna | Processing and Differential Expression Analysis of Agilent microRNA chips |

agprobe | Probe sequence data for microarrays of type ag |

Agreement | Statistical Tools for Measuring Agreement |

agricolae | Statistical Procedures for Agricultural Research |

agridat | Agricultural datasets |

agrmt | Calculates agreement A |

agromet | Tools for agro-meteorological analysis |

AGSDest | Estimation in adaptive group sequential trials |

ahaz | Regularization for semiparametric additive hazards regression |

AICcmodavg | Model selection and multimodel inference based on (Q)AIC(c) |

AIGIS | Areal Interpolation for GIS data |

AIM | AIM: adaptive index model |

akima | Interpolation of irregularly spaced data |

ALA | Data sets and examples for the book "Applied Longitudinal Analysis" |

alabama | Constrained nonlinear optimization |

alfa | Apache Log File Analysis |

AlgDesign | Algorithmic Experimental Design |

ALL | A data package |

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 |

ALLMLL | A subset of arrays from a large acute lymphoblastic leukemia (ALL) study |

AllPossibleSpellings | Computes all of a word's possible spellings. |

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 |

alplot | Plot array lists |

alr | alternating logistic regression |

alr3 | Data to accompany Applied Linear Regression 3rd edition |

ALS | multivariate curve resolution alternating least squares (MCR-ALS) |

altcdfenvs | alternative CDF environments (aka probeset mappings) |

AMA | Anderson-Moore Algorithm |

amap | Another Multidimensional Analysis Package |

AMAP.Seq | Compare Gene Expressions from 2-Treatment RNA-Seq Experiments |

ambur | Analyzing Moving Boundaries Using R |

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. |

AMORE | A MORE flexible neural network package |

AmpAffyExample | Example of Amplified Data |

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 | Connects to Anametrix |

anapuce | Tools for microarray data analysis |

andrews | Andrews curves |

anesrake | ANES Raking Implementation |

anchors | Statistical analysis of surveys with anchoring vignettes |

Animal | Analyze time-coded animal behavior data |

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 |

annaffy | Annotation tools for Affymetrix biological metadata |

annotate | Annotation for microarrays |

AnnotationDbi | Annotation Database Interface |

AnnotationFuncs | Annotation translation functions |

annotationTools | Annotate microarrays and perform cross-species gene expression analyses using flat file databases. |

AnnotLists | AnnotLists: A tool to annotate multiple lists from a specific annotation file. |

anoint | Analysis of interactions |

anopheles.db0 | Base Level Annotation databases for anopheles |

anota | ANalysis Of Translational Activity (ANOTA). |

ant | Version of ant specific to R |

aod | Analysis of Overdispersed Data |

apcluster | Affinity Propagation Clustering |

apComplex | Estimate protein complex membership using AP-MS protein data |

ape | Analyses of Phylogenetics and Evolution |

apl | APL array manipulation functions |

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 |

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 |

AquaEnv | AquaEnv - an integrated development toolbox for aquatic chemical model generation |

arabidopsis.db0 | Base Level Annotation databases for arabidopsis |

aratio | Assessment ratio analysis |

ares | Environment air pollution epidemiology: a library for time series analysis |

arf3DS4 | Activated Region Fitting, fMRI data analysis (3D). |

arfS4 | Activated Region Fitting, fMRI data analysis. |

argosfilter | Argos locations filter |

argparse | Command line optional and positional argument parser. |

archetypes | Archetypal Analysis |

arm | Data Analysis Using Regression and Multilevel/Hierarchical Models |

armlite | Data Analysis Using Regression |

aroma.affymetrix | Analysis of large Affymetrix microarray data sets |

aroma.agilent | Analysis of Agilent microarray data [A DRAFT - TRUE] |

aroma.apd | A probe-level data file format used by aroma.affymetrix [DEPRECATED] |

aroma.axon | Analysis of Axon GenePix microarray data [A DRAFT - TRUE] |

aroma.cn | Copy-number analysis of large microarray data sets |

aroma.cn.eval | Package for evaluating copy-number estimates |

aroma.core | Core methods and classes used by aroma.* packages part of The Aroma Framework |

aroma.illumina | Analysis of Illumina microarray data [A DRAFT - TRUE] |

aroma.light | Light-weight methods for normalization and visualization of microarray data using only basic R data types |

aroma.seq | Sequence analysis in the Aroma Framework |

aroma.tcga | Methods for accessing online The Cancer Genome Atlas (TCGA) data |

array | Array factor for 2D periodic arrays |

ArrayExpress | Access the ArrayExpress Microarray Database at EBI and build Bioconductor data structures: ExpressionSet, AffyBatch, NChannelSet |

arrayhelpers | Convenience functions for arrays |

arrayMvout | multivariate outlier detection for expression array QA |

arrayQuality | Assessing array quality on spotted arrays |

arrayQualityMetrics | Quality metrics on microarray data sets |

ArrayTools | geneChip Analysis Package |

ars | Adaptive Rejection Sampling |

art | Applied Regression Tools |

ARTIVA | What the package does (short line) |

arules | Mining Association Rules and Frequent Itemsets |

arulesNBMiner | Mining NB-Frequent Itemsets and NB-Precise Rules |

arulesSequences | Mining frequent sequences |

arulesViz | arulesViz - Visualizing Association Rules and Frequent Itemsets |

arulesVizOld | arulesViz - Visualizing Association Rules and Frequent Itemsets |

ASAtable | Model-output formatter for sociological research. |

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 |

ASEB | Predict Acetylated Lysine Sites |

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. |

ASSET | An R package for subset-based association analysis of heterogeneous traits and subtypes |

assist | A Suite of S-Plus Functions Implementing Smoothing Splines |

AssotesteR | Statistical Tests for Genetic Association Studies |

aster | Aster Models |

aster2 | Aster Models |

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. |

ath1121501.db | Affymetrix Arabidopsis ATH1 Genome Array annotation data (chip ath1121501) |

ath1121501cdf | ath1121501cdf |

ath1121501probe | Probe sequence data for microarrays of type ath1121501 |

AtmRay | Acoustic Traveltime Calculations for 1-D Atmospheric Models |

attract | Methods to Find the Gene Expression Modules that Represent the Drivers of Kauffman's Attractor Landscape |

AUCRF | Variable Selection with Random Forest and the Area Under the Curve |

audio | Audio Interface for R |

audit | Bounds for Accounting Populations |

aurelhy | Hydrometeorological interpolation |

austin | A package for doing things with words |

auteur | Bayesian sampler of the trait-evolutionary process |

automap | Automatic interpolation package |

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 |

BaBooN | Bayesian Bootstrap Predictive Mean Matching - Multiple and single imputation for discrete data |

BAC | Bayesian Analysis of Chip-chip experiment |

BACCO | Bayesian Analysis of Computer Code Output (BACCO) |

background | This packages allow users to ``background'' computations. |

backtest | Exploring portfolio-based conjectures about financial instruments |

BADGER | A package for identifying sample mixups in combined expression and genotyping studies. |

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 | Breakpoint annotation model smoothing |

bandit | Functions for simple A/B split test and multi-armed bandit analysis |

barcode | Barcode distribution plots |

bark | Bayesian Additive Regresssion Kernels |

barley1cdf | barley1cdf |

barley1probe | Probe sequence data for microarrays of type barley1 |

Barnard | Barnard's Unconditional Test |

BAS | Bayesian Model Averaging using Bayesian Adaptive Sampling |

BaSAR | Bayesian Spectrum Analysis in R |

base | The R Base Package |

base64 | Base 64 encoder/decoder |

baseline | Baseline Correction of Spectra |

basicspace | A Package to Recover a Basic Space from Issue Scales |

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 |

baybi | Bayesian Biclustering with Subject and Variable Importance |

bayesclust | Tests/Searches for significant clusters in genetic data. |

bayescount | Power calculations and Bayesian analysis of count distributions and FECRT data using MCMC |

BayesDA | Functions and Datasets for the book "Bayesian Data Analysis" |

bayesDem | Graphical User Interface for bayesTFR, bayesLife and bayesPop |

BayesFactors.gibi | Compute Bayes factors using the GIBI interface |

bayesGARCH | Bayesian Estimation of the GARCH(1,1) Model with Student-t Innovations |

BayesLCA | Bayesian Latent Class Analysis |

bayesLife | Bayesian Projection of Life Expectancy |

BayesLogit | Logistic Regression |

bayesm | Bayesian Inference for Marketing/Micro-econometrics |

bayesMCClust | Mixtures-of-Experts Markov Chain Clustering and Dirichlet Multinomial Clustering |

bayesmix | Bayesian Mixture Models with JAGS |

bayespack | Numerical Integration for Bayesian Inference |

BayesPeak | Bayesian Analysis of ChIP-seq Data |

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 |

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 |

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 |

baySeq | Empirical Bayesian analysis of patterns of differential expression in count data |

BAYSTAR | On Bayesian analysis of Threshold autoregressive model (BAYSTAR) |

BB | Solving and Optimizing Large-Scale Nonlinear Systems |

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 |

BCA | Business and Customer Analytics |

BCBCSF | Bias-corrected Bayesian Classification with Selected Features |

BCE | Bayesian composition estimator: estimating sample (taxonomic) composition from biomarker data |

BCEA | Bayesian Cost Effectiveness Analysis |

Bclim | Bayesian Palaeoclimate Reconstruction from Pollen |

bclust | Bayesian clustering using spike-and-slab hierarchical model, suitable for clustering high-dimensional data. |

bcp | A Package for Performing a Bayesian Analysis of Change Point Problems |

BCRANK | Predicting binding site consensus from ranked DNA sequences |

bcrm | Bayesian continuous reassessment method (CRM) designs for Phase I dose-finding trials. |

bcv | Cross-Validation for the SVD (Bi-Cross-Validation) |

bda | Algorithms for Binned/Weighted Data Analysis |

bdpv | Inference and design for predictive values in binary diagnostic tests |

bdsmatrix | Routines for Block Diagonal Symmetric matrices |

beadarray | Quality assessment and low-level analysis for Illumina BeadArray data |

beadarrayExampleData | Example data for the beadarray package |

beadarrayFilter | Bead filtering for Illumina bead arrays |

beadarrayMSV | Analysis of Illumina BeadArray SNP data including MSV markers |

beadarraySNP | Normalization and reporting of Illumina SNP bead arrays |

BeadArrayUseCases | Analysing Illumina BeadArray expression data using Bioconductor |

BeadDataPackR | Compression of Illumina BeadArray data |

beanplot | Visualization via Beanplots (like Boxplot/Stripchart/Violin Plot) |

bear | Average bioequivalence and bioavailability data analysis tool |

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 |

bentcableAR | Bent-Cable Regression for Independent Data or Autoregressive Time Series |

ber | Batch Effects Removal |

Bergm | Bayesian analysis for exponential random graph models |

BerkeleyEarth | Data Input for Berkeley Earth Surface Temperature |

bertin | Bertin matrix display |

Bessel | Bessel -- Bessel Functions Computations and Approximations |

bestglm | Best Subset GLM |

beta7 | Rodriguez et al. (2004) Differential Gene Expression by Memory/Effector T Helper Cells Bearing the Gut-Homing Receptor Integrin alpha4 beta7. |

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 | Estimation and simulation of the first-order Beta-t-EGARCH model |

betfairly | Access Betfair API from R |

bethel | Bethel's algorithm. |

betr | Identify differentially expressed genes in microarray time-course data |

bfa | Bayesian Factor Analysis |

bfast | Breaks For Additive Season and Trend (BFAST) |

bfp | Bayesian Fractional Polynomials |

bgafun | BGAfun A method to identify specifity determining residues in protein families |

bgmm | Gaussian Mixture Modeling algorithms. Including the belief-based mixture modeling. |

bgraph | Bayesian Graphical Models |

BGSIMD | Block Gibbs Sampler with Incomplete Multinomial Distribution |

bgx | Bayesian Gene eXpression |

BHC | Bayesian Hierarchical Clustering |

BHH2 | Useful Functions for Box, Hunter and Hunter II |

Bchron | Bayesian chronologies via compound Poisson-Gamma processes. |

BiasedUrn | Biased Urn model distributions |

bibtex | bibtex parser |

BicARE | Biclustering Analysis and Results Exploration |

biclust | BiCluster Algorithms |

bifactorial | Inferences for bi- and trifactorial trial designs |

biganalytics | A library of utilities for big.matrix objects of package bigmemory. |

bigdata | Big Data Analytics |

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 |

bigml | R bindings for the BigML API |

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 |

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 |

binomlogit | Efficient MCMC for Binomial Logit Models |

binomTools | Performing diagnostics on binomial regression models |

bio.infer | Predict environmental conditions from biological observations |

Biobase | Biobase: Base functions for Bioconductor |

BioCalc | Bioclim Variables Calculator |

BiocCaseStudies | BiocCaseStudies: Support for the Case Studies Monograph |

BiocGenerics | Generic functions for Bioconductor |

biocGraph | Graph examples and use cases in Bioinformatics |

BiocInstaller | Install/Update Bioconductor and CRAN Packages |

biocViews | Categorized views of R package repositories |

Biodem | Biodemography functions |

bioDist | Different distance measures |

BiodiversityR | GUI for biodiversity and community ecology analysis |

Biograph | Explore life histories |

BioMark | Find biomarkers in two-class discrimination problems |

BiomarkeR | Paired (pBI) and Unpaired Biomarker Identifier (uBI) including a method to infer networks. |

biomaRt | Interface to BioMart databases (e.g. Ensembl, COSMIC ,Wormbase and Gramene) |

BIOMOD | Ensemble platform for species distribution modeling |

biomod2 | Ensemble platform for species distribution modeling |

BioMVCClass | Model-View-Controller (MVC) Classes That Use Biobase |

BioNet | Routines for the functional analysis of biological networks |

bionetdata | Biological and chemical data networks |

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 |

BioSeqClass | Classification for Biological Sequences |

BioStatR | Initiation a la Statistique avec R |

Biostrings | String objects representing biological sequences, and matching algorithms |

biovizBase | Basic graphic utilities for visualization of genomic data. |

bipartite | Visualising bipartite networks and calculating some (ecological) indices. |

BiplotGUI | Interactive Biplots in R |

birch | Dealing with very large datasets using BIRCH |

birta | Bayesian Inference of Regulation of Transcriptional Activity |

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 | A S3 class for vectors of 64bit integers |

bitops | Functions for Bitwise operations |

BitSeq | Transcript expression inference and differential expression analysis for RNA-seq data |

biVar | Bias-Variance Analysis of the Misclassification Rate |

bivarRIpower | Sample size calculations for bivariate longitudinal data |

biwavelet | Conduct univariate and bivariate wavelet analyses |

biwt | Functions to compute the biweight mean vector and covariance & correlation matrices |

bladderbatch | Bladder gene expression data illustrating batch effects |

BlakerCI | Blaker's binomial confidence limits |

BLCOP | Black-Litterman and copula-opinion pooling frameworks |

blender | Analyze biotic homogenization of landscapes |

blighty | United Kingdom coastlines |

blm | Binomial linear and linear-expit regression |

blme | Bayesian Linear Mixed-Effects models |

blockcluster | Co-Clustering package for Binary, contingency and continuous data-sets. |

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 |

blotter | Tools for transaction-oriented trading systems development. |

BLR | Bayesian Linear Regression |

BMA | Bayesian Model Averaging |

bmd | Benchmark dose analysis for dose-response data |

bmem | Mediation analysis with missing data using bootstrap |

Bmix | Bayesian Sampling for Stick-breaking Mixtures |

BMN | The pseudo-likelihood method for pairwise binary markov networks |

bmp | Read Windows Bitmap (BMP) images |

bnlearn | Bayesian network structure learning, parameter learning and inference |

BNPdensity | Ferguson-Klass type algorithm for posterior normalized random measures |

boa | Bayesian Output Analysis Program (BOA) for MCMC |

Bolstad | Bolstad functions |

Bolstad2 | Bolstad functions |

bomDataRipper | BOM data getter |

boolean | Boolean Binary Response Models |

boolfun | Cryptographic Boolean Functions |

BoolNet | Generation, reconstruction, simulation and analysis of synchronous, asynchronous, and probabilistic Boolean networks |

boostSeq | Optimized GWAS cohort subset selection for resequencing studies |

boot | Bootstrap Functions (originally by Angelo Canty for S) |

bootES | Bootstrap Effect Sizes |

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 | Boruta -- a tool for finding significant attributes in information systems |

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 |

bovine.db | Affymetrix bovine annotation data (chip bovine) |

bovine.db0 | Base Level Annotation databases for bovine |

bovinecdf | bovinecdf |

bovineprobe | Probe sequence data for microarrays of type bovine |

bpca | Biplot of Multivariate Data Based on Principal Components Analysis |

bpcp | Beta Product Confidence Procedure for Right Censored Data |

BPHO | Bayesian Prediction with High-order Interactions |

bpkde | Back Projected Kernel Density Estimation |

bpm | Basic functions for panel data analysis |

bptwin | Cumulative incidence models for twin data |

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 |

BRAIN | Baffling Recursive Algorithm for Isotope distributioN calculations |

BrainStars | query gene expression data and plots from BrainStars (B*) |

brainwaver | Basic wavelet analysis of multivariate time series with a visualisation and parametrisation using graph theory. |

breakage | SICM pipette tip geometry estimation |

breastCancerMAINZ | Gene expression dataset published by Schmidt et al. [2008] (MAINZ). |

breastCancerNKI | Genexpression dataset published by van't Veer et al. [2002] and van de Vijver et al. [2002] (NKI). |

breastCancerTRANSBIG | Gene expression dataset published by Desmedt et al. [2007] (TRANSBIG). |

breastCancerUNT | Gene expression dataset published by Sotiriou et al. [2007] (UNT). |

breastCancerUPP | Gene expression dataset published by Miller et al. [2005] (UPP). |

breastCancerVDX | Gene expression datasets published by Wang et al. [2005] and Minn et al. [2007] (VDX). |

bReeze | Functions for wind resource assessment |

brew | Templating Framework for Report Generation |

brglm | Bias reduction in binomial-response GLMs. |

bridge | Bayesian Robust Inference for Differential Gene Expression |

Brobdingnag | Very large numbers in R |

bronchialIL13 | time course experiment involving il13 |

BRugs | R interface to the OpenBUGS MCMC software |

BSagri | Statistical methods for safety assessment in agricultural field trials |

BSDA | Basic Statistics and Data Analysis |

BSgenome | Infrastructure for Biostrings-based genome data packages |

BSgenome.Alyrata.JGI.v1 | Arabidopsis lyrata full genome (JGI version V1.0) |

BSgenome.Amellifera.BeeBase.assembly4 | Apis mellifera (Honey Bee) full genome (BeeBase assembly4) |

BSgenome.Amellifera.UCSC.apiMel2 | Apis mellifera (Honey Bee) full genome (UCSC version apiMel2) |

BSgenome.Athaliana.TAIR.04232008 | Arabidopsis thaliana full genome (TAIR version from April 23, 2008) |

BSgenome.Athaliana.TAIR.TAIR9 | Arabidopsis thaliana full genome (TAIR9) |

BSgenome.Btaurus.UCSC.bosTau3 | Bos taurus (Cow) full genome (UCSC version bosTau3) |

BSgenome.Btaurus.UCSC.bosTau4 | Bos taurus (Cow) full genome (UCSC version bosTau4) |

BSgenome.Celegans.UCSC.ce2 | Caenorhabditis elegans (Worm) full genome (UCSC version ce2) |

BSgenome.Celegans.UCSC.ce6 | Caenorhabditis elegans (Worm) full genome (UCSC version ce6) |

BSgenome.Cfamiliaris.UCSC.canFam2 | Canis lupus familiaris full genome (UCSC version canFam2) |

BSgenome.Dmelanogaster.UCSC.dm2 | Drosophila melanogaster (Fly) full genome (UCSC version dm2) |

BSgenome.Dmelanogaster.UCSC.dm3 | Drosophila melanogaster (Fly) full genome (UCSC version dm3) |

BSgenome.Drerio.UCSC.danRer5 | Danio rerio (Zebrafish) full genome (UCSC version danRer5) |

BSgenome.Drerio.UCSC.danRer6 | Danio rerio (Zebrafish) full genome (UCSC version danRer6) |

BSgenome.Drerio.UCSC.danRer7 | Danio rerio (Zebrafish) full genome (UCSC version danRer7) |

BSgenome.Ecoli.NCBI.20080805 | Escherichia coli full genomes |

BSgenome.Gaculeatus.UCSC.gasAcu1 | Gasterosteus aculeatus (Stickleback) full genome (UCSC version gasAcu1) |

BSgenome.Ggallus.UCSC.galGal3 | Gallus gallus (Chicken) full genome (UCSC version galGal3) |

BSgenome.Hsapiens.UCSC.hg17 | Homo sapiens (Human) full genome (UCSC version hg17) |

BSgenome.Hsapiens.UCSC.hg18 | Homo sapiens (Human) full genome (UCSC version hg18) |

BSgenome.Hsapiens.UCSC.hg19 | Homo sapiens (Human) full genome (UCSC version hg19) |

BSgenome.Mmulatta.UCSC.rheMac2 | Macaca mulatta (Rhesus) full genome (UCSC version rheMac2) |

BSgenome.Mmusculus.UCSC.mm10 | Mus musculus (Mouse) full genome (UCSC version mm10) |

BSgenome.Mmusculus.UCSC.mm8 | Mus musculus (Mouse) full genome (UCSC version mm8) |

BSgenome.Mmusculus.UCSC.mm9 | Mus musculus (Mouse) full genome (UCSC version mm9) |

BSgenome.Ptroglodytes.UCSC.panTro2 | Pan troglodytes (Chimp) full genome (UCSC version panTro2) |

BSgenome.Rnorvegicus.UCSC.rn4 | Rattus norvegicus (Rat) full genome (UCSC version rn4) |

BSgenome.Scerevisiae.UCSC.sacCer1 | Saccharomyces cerevisiae (Yeast) full genome (UCSC version sacCer1) |

BSgenome.Scerevisiae.UCSC.sacCer2 | Saccharomyces cerevisiae (Yeast) full genome (UCSC version sacCer2) |

BSgenome.Scerevisiae.UCSC.sacCer3 | Saccharomyces cerevisiae (Yeast) full genome (UCSC version sacCer3) |

BSgenome.Tgondii.ToxoDB.7.0 | Toxoplasma gondii ME49 (ToxoDB-7.0) |

BsMD | Bayes Screening and Model Discrimination |

bsml | Basis Selection from Multiple Libraries |

bspec | Bayesian spectral inference |

bspmma | bspmma: Bayesian Semiparametric Models for Meta-Analysis |

bst | Gradient Boosting |

bstats | Basic statistical functions for R |

bsubtiliscdf | bsubtiliscdf |

bsubtilisprobe | Probe sequence data for microarrays of type bsubtilis |

BTSPAS | Bayesian Time-Strat. Population Analysis |

BufferedMatrix | A matrix data storage object held in temporary files |

BufferedMatrixMethods | Microarray Data related methods that utlize BufferedMatrix objects |

BUGSExamples | Collection of BUGS examples |

bujar | Buckley-James Regression for Survival Data with High-Dimensional Covariates |

BurStFin | Burns Statistics Financial |

BUS | Gene network reconstruction |

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 |

c3net | Infering large-scale gene networks with C3NET |

ca | Simple, Multiple and Joint Correspondence Analysis |

cacIRT | Classification accuracy and consistency under Item Response Theory |

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 |

cacher | Tools for caching and distributing statistical analyses |

cacheSweave | Tools for caching Sweave computations |

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 | Calibration model for estimating absolute expression levels from microarray data |

calibFit | Statistical models and tools for assay calibration |

calibrate | Calibration of Scatterplot and Biplot Axes |

calibrator | Bayesian calibration of complex computer codes |

CALINE3 | R interface to Fortran 77 implementation of CALINE3 |

calmate | Post-calibration of allele-specific copy-number estimates (ASCNs) |

CAMERA | Collection of annotation related methods for mass spectrometry data |

cancerdata | Development and validation of diagnostic tests from high-dimensional molecular data: Datasets |

CancerMutationAnalysis | Cancer mutation analysis |

candisc | Generalized Canonical Discriminant Analysis |

candlesticks | Candlestick Pattern Recognition |

canine.db | Affymetrix canine annotation data (chip canine) |

canine.db0 | Base Level Annotation databases for canine |

canine2.db | Affymetrix canine2 annotation data (chip canine2) |

canine2cdf | canine2cdf |

canine2probe | Probe sequence data for microarrays of type canine2 |

caninecdf | caninecdf |

canineprobe | Probe sequence data for microarrays of type canine |

CANS.works | Import, manipulate and analyze data from the Massachusetts CANS tool |

canvas | R graphics device targeting the HTML canvas element. |

caper | Comparative Analyses of Phylogenetics and Evolution in R |

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 |

cardidates | Identification of cardinal dates in ecological time series |

care | High-Dimensional Regression and CAR Score Variable Selection |

CARE1 | Statistical package for population size estimation in capture-recapture models. |

caret | Classification and Regression Training |

caretLaTeX | LaTeX Classes for the caret Package |

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 |

CAscaling | CA scaling in R |

caschrono | Séries temporelles avec R - Méthodes et cas |

caspar | Clustered and sparse regression (CaSpaR) |

cat | Analysis of categorical-variable datasets with missing values |

catdata | Categorical Data |

CatDyn | Fishery Stock Assessment by Catch Dynamic Models |

Category | Category Analysis |

categoryCompare | Meta-analysis of high-throughput experiments using feature annotations |

catIrt | An R Package for Simulating IRT-Based Computerized Adaptive Tests |

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 |

CAVIAR | Collection of Functions for Processing, Visualizing and Analyzing Cambial Activity and Wood Formation Monitoring Data |

cba | Clustering for Business Analytics |

cbmisc | Claudia's collection of miscellaneous functions |

CBPS | R Package for Covariate Balancing Propensity Score |

CCA | Canonical correlation analysis |

ccaPP | (Robust) canonical correlation analysis via projection pursuit |

cccd | Class Cover Catch Digraphs |

cccrm | CCC-RM |

ccems | Combinatorially Complex Equilibrium Model Selection |

ccgarch | Conditional Correlation GARCH models |

CCl4 | Carbon Tetrachloride (CCl4) treated hepatocytes |

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) |

ccTutorial | Data package for ChIP-chip tutorial |

cda | Coupled dipole approximation |

CDFt | Statistical downscaling through CDF-transform |

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 |

celegans.db | Affymetrix celegans annotation data (chip celegans) |

celeganscdf | celeganscdf |

celegansprobe | Probe sequence data for microarrays of type celegans |

cellGrowth | Fitting cell population growth models |

cellHTS | Analysis of cell-based screens |

cellHTS2 | Analysis of cell-based screens - revised version of cellHTS |

CellNOptR | R version of CellNOpt, boolean features only |

CellularAutomaton | One-Dimensional Cellular Automata |

cellVolumeDist | Functions to fit cell volume distributions and thereby estimate cell growth rates and division times |

cem | CEM: Software for Coarsened Exact Matching |

cems | Conditional expectation manifolds. |

censReg | Censored Regression (Tobit) Models |

CensRegMod | Fitting Normal and Student-t censored regression model. |

CENTIPEDE | CENTIPEDE learns a DNaseI footprint of a transcription factor and predicts its binding sites |

CePa | Centrality-based pathway enrichment |

cepp | Context Driven Exploratory Projection Pursuit |

ceu1kg | CEU (N=60) genotypes from 1000 genomes pilot phase I |

ceuhm3 | ceuhm3: genotype (HapMap phase III) and expression data for CEPH CEU cohort |

cfa | Analysis of configuration frequencies (CFA) |

CFL | Compensatory Fuzzy Logic |

cg | Comparison of groups |

cgdsr | R-Based API for accessing the MSKCC Cancer Genomics Data Server (CGDS). |

cgdv17 | Complete Genomics Diversity Panel, chr17 on 46 individuals |

CGEN | An R package for analysis of case-control studies in genetic epidemiology |

CGene | Causal Genetic Analysis |

cggd | Continuous Generalized Gradient Descent |

cgh | Microarray CGH analysis using the Smith-Waterman algorithm |

CGHbase | CGHbase: Base functions and classes for arrayCGH data analysis. |

CGHcall | Calling aberrations for array CGH tumor profiles. |

cghFLasso | Detecting hot spot on CGH array data with fused lasso regression. |

cghMCR | Find chromosome regions showing common gains/losses |

CGHnormaliter | Normalization of array CGH data with imbalanced aberrations. |

CGHregions | Dimension Reduction for Array CGH Data with Minimal Information Loss. |

cghseg | Segmentation methods for array CGH analysis |

CGP | Composite Gaussian process models |

cimis | R package for retrieving data from CIMIS. |

cin | Causal Inference for Neuroscience |

CircNNTSR | CircNNTSR: An R package for the statistical analysis of circular data using nonnegative trigonometric sums (NNTS) models |

CircStats | Circular Statistics, from "Topics in circular Statistics" (2001) |

circular | Circular Statistics |

CITAN | CITation ANalysis toolpack |

citbcmst | Assigning tumor samples to CIT Breast Cancer Molecular Subtypes from gene expression data |

citruscdf | citruscdf |

citrusprobe | Probe sequence data for microarrays of type citrus |

CityPlot | Visualization of structure and contents of a database |

Ckmeans.1d.dp | Optimal distance-based clustering for one-dimensional data |

class | Functions for Classification |

classGraph | Construct Graphs of S4 Class Hierarchies |

classifly | Explore classification models in high dimensions |

classInt | Choose univariate class intervals |

clhs | Conditioned Latin Hypercube Sampling |

clim.pact | Climate analysis and empirical-statistical downscaling (ESD) package for monthly and daily data. |

climates | Methods for working with weather & climate |

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 |

climstats | R functions for working with station and gridded climate data. |

clinfun | Clinical Trial Design and Data Analysis Functions |

ClinicalRobustPriors | Robust Bayesian Priors in Clinical Trials: An R Package for Practitioners |

clinsig | Clinical significance functions. |

clippda | A package for the clinical proteomic profiling data analysis |

CLL | A Package for CLL Gene Expression Data |

Clonality | Clonality testing |

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 |

clst | Classification by local similarity threshold |

clstutils | Tools for performing taxonomic assignment. |

clue | Cluster ensembles |

clues | Clustering Method Based on Local Shrinking |

clustDDist | Clustering Discrete Distributions |

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 |

clustergas | A hierarchical clustering method based on genetic algorithms |

clusterGeneration | random cluster generation (with specified degree of separation) |

clusterPower | Power calculations for cluster-randomized and cluster-randomized crossover trials |

clusterProfiler | statistical analysis and visulization of functional profiles for genes and gene clusters |

clusterRepro | Reproducibility of gene expression clusters |

clusterSim | Searching for optimal clustering procedure for a data set |

clusterStab | Compute cluster stability scores for microarray data |

ClustOfVar | Clustering of variables |

clustsig | Significant Cluster Analysis |

clustTool | GUI for clustering data with spatial information |

clv | Cluster Validation Techniques |

clValid | Validation of Clustering Results |

CMA | Synthesis of microarray-based classification |

cmaes | Covariance Matrix Adapting Evolutionary Strategy |

cMAP | A data package containing annotation data for cMAP |

CMC | Cronbach-Mesbah Curve |

cmm | Categorical Marginal Models |

cMonkey | cMonkey intgrated biclustering algorithm |

cmprsk | Subdistribution Analysis of Competing Risks |

cmrutils | Misc Functions of the Center for the Mathematical Research |

cn.farms | cn.farms - Factor Analysis for copy number estimation |

cn.mops | cn.mops - Mixture of Poissons for CNV detection in NGS data |

cnagIO | Methods for reading CNAG files |

CNAnorm | A normalization method for Copy Number Aberration in cancer samples |

cncaGUI | Canonical Non-symmetrical Correspondence Analysis in R |

cnf2freq | same Chromosome N-loci F2 frequencies |

cnf2freqibdtracer | same Chromosome N-loci F2 frequencies, with IBD tracing |

CNTools | Convert segment data into a region by sample matrix to allow for other high level computational analyses. |

CNVassoc | Association analysis of CNV data |

cnvGSA | Gene Set Analysis of (Rare) Copy Number Variants |

cnvGSAdata | Data used in the vignette of the cnvGSA package |

CNVtools | A package to test genetic association with CNV data |

coalesceR | A pedagogical tool to teach the basics of coalescent theory |

coarseDataTools | A collection of functions to help with analysis of coarse infectious disease data |

cobs | COBS -- Constrained B-splines (Sparse matrix based) |

cobs99 | Constrained B-splines -- outdated 1999 version |

CoCiteStats | Different test statistics based on co-citation. |

CoClust | Copula based cluster analysis |

cocorresp | Co-correspondence analysis methods |

coda | Output analysis and diagnostics for MCMC |

codelink | Manipulation of Codelink Bioarrays data. |

codep | Multiscale Codependence Analysis |

codetools | Code Analysis Tools for R |

coefplot | Plots Coefficients from Fitted Models |

coefplot2 | Coefficient plots |

coenoflex | Gradient-Based Coenospace Vegetation Simulator |

coexist | Species coexistence modeling and analysis |

coGPS | cancer outlier Gene Profile Sets |

coild | Classification Of Incomplete Longitudinal Datastructures |

coin | Conditional Inference Procedures in a Permutation Test Framework |

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 |

CollocInfer | Collocation Inference for Dynamic Systems |

coloc | Colocalisation tests of two genetic traits |

colonCA | exprSet for Alon et al. (1999) colon cancer data |

colorRamps | Builds color tables |

colorspace | Color Space Manipulation |

colortools | Tools for colors in an HSV color model |

colourschemes | Data-driven colour scheme mappers |

combinat | combinatorics utilities |

CombMSC | Combined Model Selection Criteria |

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 |

compare | Comparing Objects for Differences |

compareGroups | descriptives 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 | Event-specific incidence rates for competing risks data |

compHclust | Complementary Hierarchical Clustering |

compiler | The R Compiler Package |

complex.surv.dat.sim | Simulation of complex survival data |

CompModSA | Sensitivity Analysis for Complex Computer Models |

compoisson | Conway-Maxwell-Poisson Distribution |

COMPoissonReg | Conway-Maxwell Poisson (COM-Poisson) Regression |

compositions | Compositional Data Analysis |

compound.Cox | Regression estimation based on the compound covariate methed 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 |

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 |

conf.design | Construction of factorial designs |

confReg | Confidence Estimators for Individual Regression Predictions |

conjoint | Conjoint analysis package |

ConjointChecks | A package to check the cancellation axioms of conjoint measurement. |

CONOR | CONOR |

CONORData | CONORData |

ConsensusClusterPlus | ConsensusClusterPlus |

ConsPlan | Conservation Planning Tools |

constants | Defines some physical constants and functions commonly used in optics, plasmonics. |

constrainedKriging | Constrained, covariance-matching constrained and universal point or block kriging |

contfrac | Continued fractions |

contrast | A collection of contrast methods |

ConvCalendar | Converts dates between calendars |

ConvergenceConcepts | Seeing convergence concepts in action |

convert | Convert Microarray Data Objects |

convexHaz | Nonparametric MLE/LSE of convex hazard |

convoi | Convex Optimization in R |

COP | Variables selection for index models via correlation pursuit |

copa | Functions to perform cancer outlier profile analysis. |

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 |

Corbi | Corbi - A collection of bioinformatics tools |

corcounts | Generate correlated count random variables |

CORElearn | CORElearn - classification, regression, feature evaluation and ordinal evaluation |

Cormotif | Correlation Motif Fit |

coRNAi | Analysis of co-knock-down RNAi data |

corpcor | Efficient Estimation of Covariance and (Partial) Correlation |

corpora | Statistics and data sets for corpus frequency data |

CorrBin | Nonparametrics with clustered binary data |

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 |

COSINE | COndition SpecIfic sub-NEtwork |

cosmo | Supervised detection of conserved motifs in DNA sequences |

cosmoFns | Functions for cosmological distances, times, luminosities, etc. |

cosmoGUI | GUI for constructing constraint sets used by the cosmo package |

cosso | COSSO, adaptive COSSO, variable selection for nonparametric smoothing spline (quantile) regression models. |

costat | Time series costationarity determination and tests of stationarity. |

cotrend | Consistant Cotrend Rank Selection |

cottoncdf | cottoncdf |

cottonprobe | Probe sequence data for microarrays of type cotton |

COUNT | Functions, data and code for count data. |

countreg | Count Data Regression |

countrycode | Convert country names and country codes |

Covpath | COVPATH Package |

covRobust | Robust Covariance Estimation via Nearest Neighbor Cleaning |

CoxBoost | Cox models by likelihood based boosting for a single survival endpoint or competing risks |

CoxFlexBoost | Boosting Flexible Cox Models (with Time-Varying Effects) |

coxme | Mixed Effects Cox Models. |

coxphf | Cox regression with Firth's penalized likelihood |

coxphw | Weighted Cox regression |

coxrobust | Robust Estimation in Cox Model |

COZIGAM | Constrained and Unconstrained Zero-Inflated Generalized Additive Models with Model Selection Criterion |

CPE | Concordance Probability Estimates in Survival Analysis |

CpGassoc | Association between Methylation and a phenotype of interest |

CPHshape | Find the maximum likelihood estimator of the shape constrained hazard baseline and the effect parameters in the Cox proportional hazards model |

cplm | Compound Poisson linear models |

cpm | Sequential Parametric and Nonparametric Change Detection |

CPMCGLM | Correction of the pvalue after multiple coding |

Cprob | Conditional probability function of a competing event |

cqn | Conditional quantile normalization |

CR | Power Calculation for Weighted Log-Rank Tests in Cure Rate Models |

cRacker | R-script suite for automated processing of proteomic peptide lists |

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 |

CreditMetrics | Functions for calculating the CreditMetrics risk model |

cremo | cremo: Comparative REndering of Model Outputs |

CRF | CRF - Conditional Random Fields |

CRImage | CRImage a package to classify cells and calculate tumour cellularity |

crimCV | Group-Based Modelling of Longitudinal Data |

crlmm | Genotype Calling (CRLMM) and Copy Number Analysis tool for Affymetrix SNP 5.0 and 6.0 and Illumina arrays. |

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 |

cropData | Modelling crop trial data |

cropr | simulate crop growth |

crossdes | Design and Randomization in Crossover Studies |

crosshybDetector | Detection of cross-hybridization events in microarray experiments |

crossmatch | The Cross-match Test |

crp.CSFP | CreditRisk+ portfolio model |

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 |

crules | Classification Rules |

CrypticIBDcheck | Identifying cryptic relatedness in genetic association studies |

csampling | Functions for Conditional Simulation in Regression-Scale Models |

CSAR | Statistical tools for the analysis of ChIP-seq data |

cshapes | CShapes Dataset and Utilities |

cslogistic | Conditionally Specified Logistic Regression |

csound | Accessing Csound functionality through R |

ctarma | Estimation and simulation of CARMA(p,q) |

ctc | Cluster and Tree Conversion. |

cthresh | Complex Wavelet Denoising software. |

ctm | Conditional Transformation Models |

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 |

cudaBayesregData | Data sets for the examples used in the package "cudaBayesreg" |

cudia | CUDIA Cross-level Imputation |

CulturalAnalytics | Functions for statistical analysis and plotting of image properties |

cummeRbund | Analysis, exploration, manipulation, and visualization of Cufflinks high-throughput sequencing data. |

CUMP | Analyze Multivariate Phenotypes by Combining Univariate results |

cumplyr | Extends ddply to allow calculation of cumulative quantities. |

cumSeg | Change point detection in genomic sequences |

curvclust | Curve clustering |

curve | Dynamic Systems Estimation - Curvature extensions |

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 to calculate the tail probabilities. |

curvHDR | curvHDR filtering of flow cytometry samples |

cusp | Cusp Catastrophe Model Fitting Using Maximum Likelihood |

cvm.test | Discrete Cramer von Mises Goodness-of-Fit Tests |

CvM2SL1Test | L1-version of Cramer-von Mises Two Sample Tests |

CvM2SL2Test | Cramer-von Mises Two Sample Tests |

cvplogistic | Majorization Minimization by Coordinate Descent Algorithm for Concave Penalized Logistic Regression for High Dimensional Data |

CVThresh | Level-Dependent Cross-Validation Thresholding |

cvTools | Cross-validation tools for regression models |

cwhmisc | Miscellaneous Functions for maths, plotting, printing, statistics, strings, and tools |

cxxfunplus | extend cxxfunction by saving the dynamic shared objects |

cycle | Significance of periodic expression pattern in time-series data |

cyclones | Cyclone identification |

cyp450cdf | cyp450cdf |

cyphid | Cycle and Phase Identification for mastication data |

cytoDiv | Cytometric diversity indices |

ChainLadder | Statistical methods for the calculation of outstanding claims reserves in general insurance |

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 |

cheb | Discrete Linear Chebyshev Approximation |

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 |

ChemoSpec | Exploratory Chemometrics for Spectroscopy |

cherry | Multiple testing methods for exploratory research |

CHNOSZ | Chemical Thermodynamics and Activity Diagrams |

ChoiceModelR | Choice Modeling in R |

choplump | Choplump tests |

chron | Chronological objects which can handle dates and times |

CHsharp | Choi and Hall Clustering in 3d |

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 |

dafs | Data analysis for forensic scientists |

DAGGER | Consensus genetic maps |

dagR | R functions for directed acyclic graphs |

Daim | Diagnostic accuracy of classification models. |

dairy | Functions and models related to dairy production |

DAKS | Data Analysis and Knowledge Spaces |

daMA | Efficient design and analysis of factorial two-colour microarray data |

DAMisc | Dave Armstrong's Miscellaneous Functions |

DandEFA | Dandelion Plot for R-mode Exploratory Factor Analysis |

DART | Denoising Algorithm based on Relevance network Topology |

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 |

dataframe | Fast data frames |

dataframes2xls | dataframes2xls writes data frames to xls files |

datamap | A system for mapping foreign objects to R variables and environments |

datamart | Unified access to various data sources |

datamerge | Merging of overlapping and inconsistent data |

Dataset | Handling survey data in R. |

datasets | The R Datasets Package |

dataview | Human readable data presentation |

date | Functions for handling dates |

DATforDCEMRI | Deconvolution Analysis Tool for Dynamic Contrast Enhanced MRI |

DATRAS | Read and convert raw data obtained from http://datras.ices.dk/Data_products/Download/Download_Data_public.aspx |

DAVIDQuery | Retrieval from the DAVID bioinformatics data resource into R |

Davies | The Davies quantile function |

dbEmpLikeGOF | Goodness-of-fit and two sample comparison tests using sample entropy |

DBGSA | methods of distance-based gene set functional enrichment analysis. |

DBI | R Database Interface |

dblcens | Compute the NPMLE of distribution from doubly censored data |

dbstats | Distance-based statistics (dbstats) |

dcemriS4 | A Package for Medical Image Analysis (S4 implementation) |

dcens | Doubly censoring estimation |

DCGL | Differential Coexpression Analysis of Gene Expression Microarray Data |

dclone | Data Cloning and MCMC Tools for Maximum Likelihood Methods |

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 |

DDD | Diversity-dependent diversification |

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 |

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 |

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 |

deducorrect | Deductive correction of simple rounding, typing and sign errors |

Defaults | Create Global Function Defaults |

degenes | Detection of differentially expressed genes. |

degreenet | Models for Skewed Count Distributions Relevant to Networks |

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 |

DEMEtics | Evaluating the genetic differentiation between populations based on Gst and D values. |

demography | Forecasting mortality, fertility, migration and population data |

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 | Inference for parametric and semiparametric models based on dependent truncation data |

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 |

DesignPatterns | Design Patterns in R to build reusable object-oriented software |

desirability | Desirabiliy Function Optimization and Ranking |

desire | Desirability functions |

deSolve | General solvers for initial value problems of ordinary differential equations (ODE), partial differential equations (PDE), differential algebraic equations (DAE), and delay differential equations (DDE). |

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 |

dfcrm | Dose-finding by the continual reassessment method |

dfoptim | Derivative-free Optimization |

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 |

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. |

dicionariosIBGE | Dictionaries for reading survey microdata from IBGE |

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? |

diffEq | Functions from the book Solving Differential Equations in R |

diffractometry | Baseline identification and peak decomposition for x-ray diffractograms |

diffusionMap | Diffusion map |

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 |

digitize | digitize : a plot digitizer in R |

dichromat | Color schemes for dichromats |

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 |

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 |

DiscreteLaplace | Discrete Laplace distribution |

discreteMTP | Multiple testing procedures for discrete test statistics |

discretization | Data preprocessing, discretization for classification. |

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 |

dispmod | Dispersion models |

Distance | A simple way to fit detection functions to distance sampling data and calculate abundance/density for biological populations. |

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 |

DistributionUtils | Distribution Utilities |

distrMod | Object oriented implementation of probability models |

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. |

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 |

dmt | Dependency Modeling Toolkit |

DMwR | Functions and data for "Data Mining with R" |

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 |

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 |

doSNOW | Foreach parallel adaptor for the snow package |

dostats | Compute statistics helper functions |

dpa | Dynamic Path Approach |

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 |

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 |

drm | Regression and association models for repeated categorical data |

ds | Descriptive Statistics |

dsample | Discretization-based Direct Random Sample Generation |

dse | Dynamic Systems Estimation (time series package) |

dse1 | DSE (unbundled transition package). |

dse2 | DSE (unbundled transition package). |

DSL | Distributed Storage and List |

DSpat | Spatial modelling for distance sampling data |

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 |

dtt | Discrete Trigonometric Transforms |

dtw | Dynamic Time Warping algorithms |

dummies | Create dummy/indicator variables flexibly and efficiently |

dvfBm | Discrete variations of a fractional Brownian motion |

DWD | DWD implementation based on A IPM SOCP solver |

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 |

dynCorr | Dynamic Correlation Package |

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 |

earth | Multivariate Adaptive Regression Spline Models |

easi | EASI Demand System Estimation |

easyanova | Analysis of variance and other important complementary analyzes |

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 |

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 |

EcoTroph | EcoTroph modelling support |

EDanalysis | A R Package For Gene Enrichment Disequilibrium Analysis |

edcc | Economic Design of Control Charts |

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 | Provide tools for dimension reduction methods |

effects | Effect Displays for Linear, Generalized Linear, Multinomial-Logit, Proportional-Odds Logit Models and Mixed-Effects Models |

EffectStars | Visualization of Categorical Response Models |

egonet | Tool for ego-centric measures in Social Network Analysis |

eha | Event History Analysis |

eigendog | EigenDog |

eigeninv | Generates (dense) matrices that have a given set of eigenvalues |

eigenmodel | Semiparametric factor and regression models for symmetric relational data |

eiPack | eiPack: Ecological Inference and Higher-Dimension Data Management |

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 |

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. |

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 |

EMA | Easy Microarray data Analysis |

EMC | Evolutionary Monte Carlo (EMC) algorithm |

EMCC | Evolutionary Monte Carlo (EMC) methods for clustering |

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 |

emme2 | Read and Write to an EMME/2 databank |

emoa | Evolutionary Multiobjective Optimization Algorithms |

emplik | Empirical likelihood ratio for censored/truncated data |

emplik2 | Empirical-likelihood test (two-sample, censored data) |

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 |

ENA | Ensemble Network Aggregation |

endogMNP | R Package for Fitting Multinomial Probit Models with Endogenous Selection |

endorse | R Package for Analyzing Endorsement Experiments |

energy | E-statistics (energy statistics) |

english | Translate integers into English |

EngrExpt | Data sets from "Introductory Statistics for Engineering Experimentation" |

ENmisc | Neuwirth miscellaenous |

EnQuireR | A package dedicated to questionnaires |

enrichvs | Enrichment assessment of virtual screening approaches |

ensembleBMA | Probabilistic Forecasting using Ensembles and Bayesian Model Averaging |

entropy | Entropy and Mutual Information Estimation |

envelope | Envelope normality test |

epade | Easy Plots |

Epi | A package for statistical analysis in epidemiology. |

epibasix | Elementary Epidemiological Functions for a Graduate Epidemiology\Biostatistics Course |

epicalc | Epidemiological calculator |

EpiContactTrace | Epidemiological tool for contact tracing. |

EpiEstim | EpiEstim: a package to estimate time varying reproduction numbers from epidemic curves. |

epinet | A collection of epidemic/network-related tools |

epiR | An R package for the analysis of epidemiological data |

epitools | Epidemiology Tools |

epsi | Edge Preserving Smoothing for Images |

EQL | Extended-Quasi-Likelihood-Function (EQL) |

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 |

EquiNorm | Normalize expression data using equivalently expressed genes |

equivalence | Provides tests and graphics for assessing tests of equivalence |

erer | Empirical Research in Economics with R |

ergm | Fit, Simulate and Diagnose Exponential-Family Models for Networks |

ergm.userterms | User-specified terms for the statnet suite of packages |

eRm | Extended Rasch Modeling |

esd4all | esd4all |

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. |

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 |

EVER | Estimation of Variance by Efficient Replication |

evir | Extreme Values in R |

evora | Epigenetic Variable Outliers for Risk prediction Analysis |

evtree | Evolutionary Learning of Globally Optimal Trees |

Exact | Unconditional Exact Tests |

exact2x2 | Exact Conditional Tests and Confidence Intervals for 2x2 tables |

exactci | Exact P-values and Matching Confidence Intervals for simple Discrete Parametric Cases |

exactLoglinTest | Monte Carlo Exact Tests for Log-linear models |

exactmaxsel | Maximally selected statistics for binary response variables - Exact methods |

exactRankTests | Exact Distributions for Rank and Permutation Tests |

exams | Automatic Generation of Standardized Exams for Large-Lecture Courses |

ExomeCNV | Detect CNV and LOH from Exome Sequecing Data |

ExomeDepth | Calls CNV from exome sequence data |

ExPD2D | Exact Computation of Bivariate Projection Depth Based on Fortran Code |

ExpDes | Experimental Designs package |

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 |

ExPosition | Exploratory analysis with the singular value decomposition. |

expsmooth | Data sets from "Forecasting with exponential smoothing" |

exptest | Tests for Exponentiality |

extfunnel | Additional Funnel Plot Augmentations |

extraBinomial | Extra-binomial approach for pooled sequencing data |

extracat | Graphic Extensions for Categorical Data |

extrafont | Tools for using fonts |

extrafontdb | Package for holding the database for the extrafont package |

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 |

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 |

FAiR | Factor Analysis in R |

fairselect | Feature Annealed Independence Rules (demo) |

faisalconjoint | Faisal Conjoint Model: A New Approach to Conjoint Analysis |

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 | Visualisations of sequential probability distributions. |

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 |

fAsianOptions | EBM and Asian Option Valuation |

fAssets | Rmetrics - Assets Selection and Modelling |

fast | Implementation of the Fourier Amplitude Sensitivity Test (FAST) |

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 |

fastR | Data sets and utilities for Foundations and Applications of Statistics by R Pruim |

FastRWeb | Fast Interactive Framework for Web Scripting Using R |

fastVAR | fastVAR |

favir | Formatted Actuarial Vignettes in R |

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 |

FBN | FISH Based Normalization and Copy Number inference of SNP microarray data |

fBonds | Bonds and Interest Rate Models |

fCertificates | fCertificates - Basics of Certificates and Structured Products Valuation |

fCopulae | Rmetrics - Dependence Structures with Copulas |

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) |

fdaMixed | Functional data analysis in a mixed model framework |

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 |

fExoticOptions | Exotic Option Valuation |

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 |

ffmanova | Fifty-fifty MANOVA |

fftw | Fast FFT and DCT based on FFTW |

fgac | Generalized Archimedean Copula |

fGarch | Rmetrics - Autoregressive Conditional Heteroskedastic Modelling |

FGN | Fractional Gaussian Noise, estimation and simulaton |

fgof | Fast Goodness-of-fit Test |

fgui | Function GUI |

FHtest | Tests for right and interval-censored survival data based on the Fleming-Harrington class |

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 |

FinAsym | Classifies implicit trading activity from market quotes and computes the probability of informed trading |

FindAllRoots | Find all root(s) of the equation and Find root(s) of the equation by dichotomy |

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 | Fisheries Methods and Models in R |

fishmove | Prediction of Fish Movement Parameters |

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 |

FKF | Fast Kalman Filter |

flashClust | Implementation of optimal hierarchical clustering |

flexclust | Flexible Cluster Algorithms |

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 |

flsa | Path algorithm for the general Fused Lasso Signal Approximator |

flubase | Baseline of mortality free of influenza epidemics |

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 |

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 |

foreign | Read Data Stored by Minitab, S, SAS, SPSS, Stata, Systat, 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 |

FormalSeries | Elementary arithemtic in formal series rings |

formatR | Format R Code Automatically |

Formula | Extended Model Formulas |

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" |

fracdiff | Fractionally differenced ARIMA aka ARFIMA(p,d,q) models |

fracprolif | Fraction Proliferation via a quiescent growth model |

FracSim | Simulation of Lévy motions |

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 using a semi_parametrical penalized likelihood estimation or a parametrical estimation |

FRB | Fast and Robust Bootstrap |

FRBData | Download interest rate data from FRB's website |

fRegression | Regression Based Decision and Prediction |

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 24 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 |

FSelector | Selecting attributes |

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 | FUME package |

fun | Use R for Fun |

FunCluster | Functional Profiling of Microarray Expression Data |

FuncMap | Hive Plots of R Package Function Calls |

functional | Curry, Compose, and other higher-order functions |

fUnitRoots | Trends and Unit Roots |

FunNet | Integrative Functional Analysis of Transcriptional Networks |

futile | Futile base package |

futile.any | Futile library to provide some polymorphism |

futile.logger | Futile logger subsystem |

futile.matrix | Futile matrix utilities |

futile.options | Futile options management |

futile.paradigm | A framework for working in a functional programming paradigm in R |

fuzzyFDR | Exact calculation of fuzzy decision rules for multiple testing |

fuzzyOP | Fuzzy numbers and the main mathematical operations |

fuzzyRankTests | Fuzzy Rank Tests and Confidence Intervals |

fwdmsa | Forward search for Mokken scale analysis |

FWDselect | Selecting variables in regression models |

fwsim | Fisher-Wright Population Simulation |

fxregime | Exchange Rate Regime Analysis |

g.data | Delayed-Data Packages |

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 |

GAD | GAD: Analysis of variance from general principles |

gafit | Genetic Algorithm for Curve Fitting |

galts | Genetic algorithms and C-steps based LTS (Least Trimmed Squares) estimation |

gam | Generalized Additive Models |

gamair | Data for "GAMs: An Introduction with R" |

GAMBoost | Generalized linear and additive models by likelihood based boosting |

gamboostLSS | Boosting Methods for GAMLSS Models |

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 |

gamlss | Generalized 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 |

gap | Genetic analysis package |

gaussDiff | Difference measures for multivariate Gaussian probability density functions |

gaussquad | Collection of functions for Gaussian quadrature |

gb | Generalize Lambda Distribution and Generalized Bootstrapping |

GB2 | Generalized Beta Distribution of the Second Kind: properties, likelihood, estimation. |

gbm | Generalized Boosted Regression Models |

gbRd | Utilities for processing Rd objects and files |

gbs | Package for Generalized Birnbaum-Saunders Distributions |

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 |

gclus | Clustering Graphics |

gcmr | Gaussian Copula Marginal Regression |

gcolor | Provides an Inequation Algorithm Function and a solution to import DIMACS files. |

gdata | Various R programming tools for data manipulation |

gdistance | distances and routes on geographical grids |

gdsfmt | CoreArray Genomic Data Structure (GDS) R Interface |

gee | Generalized Estimation Equation solver |

geepack | Generalized Estimating Equation Package |

geiger | Analysis of evolutionary diversification |

GenABEL | genome-wide SNP association analysis |

genalg | R Based Genetic Algorithm |

GENEAread | Package For Reading Binary files |

geneARMA | Simulate, model, and display data from a time-course microarray experiment with periodic gene expression |

GeneCycle | Identification of Periodically Expressed Genes |

GeneF | Package for Generalized F-statistics |

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 |

genepi | Genetic Epidemiology Design and Inference |

GeneralizedHyperbolic | The Generalized Hyperbolic Distribution |

GeneReg | Construct time delay gene regulatory network |

genetics | Population Genetics |

GenKern | Functions for generating and manipulating binned kernel density estimates |

genlasso | Path algorithm for generalized lasso problems |

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 |

genSurv | Generating multi-state survival 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 |

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 |

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 |

geotools | Geo tools |

GeoXp | Interactive exploratory spatial data analysis |

geozoo | Zoo of Geometric Objects |

getopt | C-like getopt behavior. |

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. |

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 |

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 |

GGMselect | Gaussian Graphs Models selection |

ggparallel | Variations of Parallel Coordinate Plots for Categorical Data |

ggplot2 | An implementation of the Grammar of Graphics |

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 |

GillespieSSA | Gillespie's Stochastic Simulation Algorithm (SSA) |

giRaph | The giRaph package for graph representation in R |

GISTools | Some further GIS capabilities for R |

glasso | Graphical lasso- estimation of Gaussian graphical models |

gld | Estimation and use of the generalised (Tukey) lambda distribution |

gldist | An Asymmetry-Steepness Parameterization of the Generalized Lambda Distribution. |

glm2 | Fitting Generalized Linear Models |

glmc | Fitting Generalized Linear Models Subject to Constraints |

glmdm | R Code for Simulation of GLMDM |

glmmAK | Generalized Linear Mixed Models |

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 |

glmulti | Model selection and multimodel inference made easy |

globalboosttest | Testing the additional predictive value of high-dimensional data |

glogis | Fitting and Testing Generalized Logistic Distributions |

glpkAPI | R Interface to C API of GLPK |

glrt | Generalized Logrank Tests for Interval-censored Failure Time Data |

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 |

gnm | Generalized Nonlinear Models |

gnmf | Generalized Non-negative Matrix Factorization |

gnumeric | Read data from files readable by gnumeric |

goalprog | Weighted and lexicographical goal programming and optimization |

gof | Model-diagnostics based on cumulative residuals |

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 |

googlePublicData | An R library to build Google's Public Data Explorer DSPL Metadata files |

googleVis | Interface between R and the Google Visualisation API |

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 enrichement analysis |

govdat | Interface to API methods for government data. |

gpairs | gpairs: The Generalized Pairs Plot |

GPArotation | GPA Factor Rotation |

gpclib | General Polygon Clipping Library for R |

gPdtest | Bootstrap goodness-of-fit test for the generalized Pareto distribution |

GPfit | Gaussian Process Modeling |

gplots | Various R programming tools for plotting data |

gppois | Gaussian Processes for Poisson-noised Data |

GPseq | gpseq: Using the generalized Poisson distribution to model sequence read counts from high throughput sequencing experiments |

gptk | Gaussian Processes Tool-Kit |

GPvam | Maximum Likelihood Estimation of the Multiple Membership Mixed Models Used in Value-Added Modeling |

grade | Provides functions for matching student-answers to teacher answers for a variety of data types. |

gRain | Graphical Independence Networks |

granova | Graphical Analysis of Variance |

granovaGG | Graphical Analysis of Variance Using ggplot2 |

graphComp | Visual graph comparison |

gRapHD | Efficient selection of undirected graphical models for high-dimensional datasets |

GrapheR | A multiplatform GUI for drawing customizable graphs in R |

graphics | The R Graphics Package |

graphicsQC | Quality Control for Graphics in R |

GrassmannOptim | Grassmann Manifold Optimization |

gRbase | A package for graphical modelling in R |

gRc | Inference in Graphical Gaussian Models with Edge and Vertex Symmetries |

grDevices | The R Graphics Devices and Support for Colours and Fonts |

gregmisc | Greg's Miscellaneous Functions |

grid | The Grid Graphics Package |

Grid2Polygons | Convert Spatial Grids to Polygons |

gridBase | Integration of base and grid graphics |

gridDebug | Debugging Grid Graphics |

gridExtra | functions in Grid graphics |

gridGraphviz | Drawing Graphs with Grid |

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 |

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. |

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 |

GSA | Gene set analysis |

gsarima | Two functions for Generalized SARIMA time series simulation |

gsbDesign | Group Sequential Bayes Design |

gsDesign | Group Sequential Design |

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 | GeneticStudio packages for R. |

gsubfn | Utilities for strings and function arguments. |

gtcorr | Calculate efficiencies of group testing algorithms with correlated responses |

gtools | Various R programming tools |

Guerry | Maps, data and methods related to Guerry (1833) "Moral Statistics of France" |

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 in GLMs |

gvlma | Global Validation of Linear Models Assumptions |

GWAF | Genome-wide association/interaction analyses with family data |

GWASExactHW | Exact Hardy-Weinburg testing for Genome Wide Association Studies |

gwerAM | Controlling the genome-wide type I error rate in association mapping experiments |

gWidgets | gWidgets API for building toolkit-independent, interactive GUIs |

gWidgetsRGtk2 | Toolkit implementation of gWidgets for RGtk2 |

gWidgetstcltk | Toolkit implementation of gWidgets for tcltk package |

gWidgetsWWW | Toolkit implementation of the gWidgets API for use with web pages |

GWRM | GWRM |

gwrr | Geographically weighted regression with penalties and diagnostic tools |

h5r | Interface to HDF5 Files |

haarfisz | Software to perform Haar Fisz transforms |

HAC | Estimation, simulation and visualization of Hierarchical Archimedean Copulae (HAC) |

HadoopStreaming | Utilities for using R scripts in Hadoop streaming |

hapassoc | Inference of trait associations with SNP haplotypes and other attributes using the EM Algorithm |

HapEstXXR | HapEstXXR |

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 |

hbim | Hill/Bliss Independence Model for Combination Vaccines |

hbmem | Hierarchical Bayesian Analysis of Recognition Memory |

hda | Heteroscedastic Discriminant Analysis |

HDclassif | High Dimensionnal 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 |

hdlm | Fitting High Dimensional Linear Models |

HDMD | Statistical Analysis Tools for High Dimension Molecular Data (HDMD) |

hdrcde | Highest density regions and conditional density estimation |

heatmap.plus | Heatmap with more sensible behavior. |

heavy | Package for outliers accomodation 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 |

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 |

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 |

highlight | Syntax highlighter |

hints | Provide hints on what to do next |

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 |

hitandrun | "Hit and Run" method for sampling uniformly form convex shapes. |

hive | Hadoop InteractiVE |

HiveR | 2D and 3D Hive Plots for R |

HLMdiag | Diagnostic tools for two-level normal hierarchical linear models |

hlr | Hidden Logistic Regression |

Hmisc | Harrell Miscellaneous |

HMM | HMM - Hidden Markov Models |

hmm.discnp | Hidden Markov models with discrete non-parametric observation distributions. |

HMMmix | The HMMmix (HMM with mixture of gaussians as emission distribution) 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 |

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 |

hot | Computation on micro-arrays |

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 |

HSAUR | A Handbook of Statistical Analyses Using R |

HSAUR2 | A Handbook of Statistical Analyses Using R (2nd Edition) |

HSROC | Joint meta-analysis of diagnostic test sensitivity and specificity with or without a gold standard reference test |

HTMLUtils | Facilitates automated HTML report creation |

hts | Hierarchical and grouped time series |

HTSCluster | Clustering high throughput sequencing (HTS) data |

httpRequest | Basic HTTP Request |

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 |

hybridHclust | Hybrid hierarchical clustering |

HybridMC | Implementation of the Hybrid Monte Carlo and Multipoint Hybrid Monte Carlo sampling techniques |

hydroGOF | Goodness-of-fit functions for comparison of simulated and observed hydrological time series |

HydroMe | Estimation of Soil Hydraulic Parameters from Experimental Data |

hydroPSO | Model-Independent Particle Swarm Optimisation for Environmental Models |

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 |

hzar | Hybrid Zone Analysis using R |

ibdreg | Regression Methods for IBD Linkage With Covariates |

IBDsim | Simulation of chromosomal regions shared by family members. |

ibr | Iterative Bias Reduction |

IBrokers | R API to Interactive Brokers Trader Workstation |

iBUGS | An Interface to R2WinBUGS 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 eye-movement correction. |

ICC | Functions facilitating the estimation of the Intraclass Correlation Coefficient |

ICE | Iterated Conditional Expectation |

ICEinfer | Incremental Cost-Effectiveness (ICE) Statistical Inference from Two Unbiased Samples |

iCluster | Integrative clustering of multiple genomic data types |

icomp | ICOMP criterion |

ICS | Tools for Exploring Multivariate Data via ICS/ICA |

ICSNP | Tools for Multivariate Nonparametrics |

idbg | R debugger |

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 |

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 |

iGasso | Genetic association tests and utilities |

iGenomicViewer | Tool for sending interactive bioinformatic heatmaps with tool-tip content. |

IgorR | Read binary files saved by Igor Pro (including Neuromatic data) |

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 |

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 |

imputeMDR | The Multifactor Dimensionality Reduction (MDR) Analysis for Imcomplete Data |

imputeYn | Imputing the last largest censored datum under weighted least squares |

IndependenceTests | Nonparametric tests of independence between random vectors. |

indicspecies | Functions to assess the strength and significance of relationship of species site group associations |

ineq | Measuring Inequality, Concentration, and Poverty |

InfDim | Infine-dimensional model (IDM) to analyse phenotypic variation in growth trajectories. |

inference | Functions to extract inferential values of a fitted model object |

influence.ME | Tools for detecting influential data in mixed effects models |

infoDecompuTE | Information Decomposition of Two-phase Experiments |

informR | R Tools for Creating Sequence Statistics |

infotheo | Information-Theoretic Measures |

infutil | Information Utility |

inline | Inline C, C++, Fortran function calls from R |

inlinedocs | Convert inline comments to documentation |

insideRODE | insideRODE includes buildin functions with deSolve solver and C/FORTRAN interfaces to nlme, together with compiled codes. |

insol | Solar Radiation |

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 |

integrOmics | end of integrOmics package |

Interact | Tests for marginal interactions in a 2 class response model |

intergraph | Coercion routines for network data objects in R |

Interpol | Interpolation of amino acid sequences |

Interpol.T | Hourly interpolation of multiple temperature daily series |

interval | Weighted Logrank Tests and NPMLE for interval censored data |

intervals | Tools for working with points and intervals |

intpoint | linear programming solver by the interior point method and graphically (two dimensions) |

intReg | Interval Regression |

intRegGOF | Integrated Regression Goodness of Fit |

introgress | methods for analyzing introgression between divergent lineages |

ipdmeta | Tools for subgroup analyses with multiple trial data using aggregate statistics |

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 |

irace | Iterated Racing Procedures |

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 |

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 |

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 |

its | Irregular Time Series |

itsmr | Time series analysis package for students |

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 |

iwtp | Numerical evaluation willingness to pay based on interval data |

JADE | JADE and other BSS methods as well as some BSS performance criteria |

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. |

JM | Joint Modeling of Longitudinal and Survival Data |

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 |

JointModeling | Joint Modelling of Mean and Dispersion |

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 |

JudgeIt | JudgeIt |

Julia | Fractal Image Data Generator |

kappalab | Non-additive measure and integral manipulation functions |

kappaSize | Sample Size Estimation Functions for Studies of Interobserver Agreement |

kaps | K Adaptive Partitioning for Survival data |

kBestShortestPaths | kbest: Finds K best paths in a given graph. |

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 |

kernlab | Kernel-based Machine Learning Lab |

KernSmooth | Functions for kernel smoothing for Wand & Jones (1995) |

KernSmoothIRT | Nonparametric Item Reponse 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 |

kinship2 | Pedigree functions |

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 |

kml | K-means for Longitudinal data |

kml3d | K-means for joint Longitudinal data |

KMsurv | Data sets from Klein and Moeschberger (1997), Survival Analysis |

knitcitations | Citations for knitr markdown files |

knitr | A general-purpose package for dynamic report generation in R |

knn | knn-gcv |

knnGarden | Multi-distance based k-Nearest Neighbors |

knorm | Microarray Data From Multiple Biologically Interrelated Experiments |

kohonen | Supervised and unsupervised self-organising maps |

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 |

KsPlot | Check the power of seveal statistical models. |

kst | Knowledge Space Theory |

ktspair | k-Top Scoring Pairs for Microarray Classification |

kulife | Datasets and functions from the 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 |

labdsv | Ordination and Multivariate Analysis for Ecology |

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 |

Lahman | Sean Lahman's Baseball Database |

Lambda4 | Estimation techniques for the reliability estimate: Maximized Lambda4 |

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 |

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 |

latdiag | Draws diagrams useful for checking latent scales |

latentnet | Latent position and cluster models for statistical networks |

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 |

lawstat | An R package for biostatistics, public policy, and law |

lazy | Lazy Learning for Local Regression |

lazyWeave | LaTeX Wrappers for R Users |

LCAextend | Latent Class Analysis (LCA) with familial dependence in extended pedigrees |

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.cv | Cross-validation for linear discriminate analysis |

ldbounds | Lan-DeMets Method for Group Sequential Boundaries |

LDcorSV | LDcorSV |

ldDesign | Design of experiments for detection of linkage disequilibrium |

LDdiag | Link Function and Distribution Diagnostic Test for Social Science Researchers |

LDheatmap | Graphical display of pairwise linkage disequilibria between SNPs |

ldlasso | LD LASSO Regression for SNP Association Study |

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 |

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. |

lifecontingencies | Package to perform actuarial mathematics for life contingencies insurances |

LifeTables | A package to implement HMD model life table system |

LIHNPSD | Poisson Subordinated Distribution |

likelihood | Methods for maximum likelihood estimation |

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 |

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 | List-processing a la SRFI-1 |

list | Statistical Methods for the Item Count Technique and List Experiment |

LIStest | Longest Increasing Subsequence Independence Test |

ljr | Logistic Joinpoint Regression |

lle | Locally linear embedding |

lmbc | Linear Model Bias Correction for RNA-Seq Data |

lme4 | Linear mixed-effects models using S4 classes |

lmec | Linear Mixed-Effects Models with Censored Responses |

LMERConvenienceFunctions | A suite of functions to back-fit fixed effects and forward-fit random effects, as well as other miscellaneous functions. |

lmeSplines | lmeSplines |

lmf | Functions for estimation and inference of selection in age-structured populations |

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 |

localdepth | Local Depth |

locfdr | Computes local false discovery rates |

locfit | Local Regression, Likelihood and Density Estimation. |

locpol | Kernel local polynomial regression |

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 |

logcondiscr | Estimate a Log-Concave Probability Mass function from Discrete i.i.d. Observations |

logging | a tentative logging package |

LogicForest | Logic Forest |

LogicReg | Logic Regression |

logistf | Firth's bias reduced logistic regression |

LogitNet | Infer network based on binary arrays using regularized logistic regression |

loglognorm | Double log normal distribution functions |

logregperm | Inference in Logistic Regression |

logspline | Logspline density estimation routines |

lokern | Kernel Regression Smoothing with Local or Global Plug-in Bandwidth |

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 | A package for performing loop decomposition of weighted directed graphs in life cycle analysis, providing general 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 |

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 |

LS2W | Locally stationary two-dimensional wavelet process estimation scheme |

lsa | Latent Semantic Analysis |

LSD | Lots of Superior Depictions |

lsmeans | Least-squares means |

lspls | LS-PLS Models |

lsr | Companion 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 |

LTPDvar | LTPD plans for sampling inspection by variables |

LTR | Perform LTR analysis on microarray data |

ltsa | Linear time series analysis |

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 |

LVQTools | Learning Vector Quantization Tools |

lxb | Fast LXB file reader |

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 |

Maeswrap | Wrapper functions for MAESTRA/MAESPA. |

magic | create and investigate magic squares |

magicaxis | Pretty scientific plotting with minor-tick and log minor-tick support |

magnets | Simulate micro-magnets dynamics |

Sending Email Notifications from R | |

MAINT.Data | Model and Analize Interval Data |

makeProject | Creates an empty package framework for the LCFD format |

makeR | Package for managing projects with multiple versions derived from a single source repository. |

malaria.em | EM Estimation of Malaria Haplotype Probabilities from Multiply Infected Human Blood Samples |

MALDIquant | Quantitative Analysis of Mass Spectrometry Data |

MAMS | Designing Multi-Arm Multi-Stage Studies |

MAMSE | Calculation of Minimum Averaged Mean Squared Error (MAMSE) weights. |

Mangrove | Risk prediction on trees |

mapdata | Extra Map Databases |

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 |

mar1s | Multiplicative AR(1) with Seasonal Processes |

marelac | Tools for Aquatic Sciences |

marg | Approximate marginal inference for regression-scale models |

marginalmodelplots | Marginal Mean Model Plots |

marginTree | marginTree: margin trees for high-dimensional classification |

markdown | Markdown rendering for R |

MarkedPointProcess | Analysis of Marks of Marked Point Processes |

maRketSim | Market simulator for R |

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 |

MasterBayes | ML and MCMC Methods for Pedigree Reconstruction and Analysis |

MAT | Multidimensional Adaptive Testing (MAT) |

mathgraph | Directed and undirected graphs |

Matching | Multivariate and Propensity Score Matching with Balance Optimization |

MatchIt | MatchIt |

matlab | MATLAB emulation package |

Matrix | Sparse and Dense Matrix Classes and Methods |

matrixcalc | Collection of functions for matrix differential calculus |

MatrixEQTL | Matrix eQTL: Ultra fast eQTL analysis via large matrix operations |

MatrixModels | Modelling with Sparse And Dense Matrices |

matrixStats | Methods that apply to rows and columns of a matrix |

MATTOOLS | Modern Calibration Functions for the Modern Analog Technique (MAT) |

MAVTgsa | Ordinary least square test and Multivariate Analysis Of Variance test with n contrasts |

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 |

mblm | Median-Based Linear Models |

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 |

MCLIME | Simultaneous Estimation of the Regression Coefficients and Precision Matrix |

mclogit | Mixed Conditional Logit |

mclust | Normal Mixture Modeling for Model-Based Clustering, Classification, and Density Estimation |

mcmc | Markov Chain Monte Carlo |

MCMCglmm | MCMC Generalised Linear Mixed Models |

MCMCpack | Markov chain Monte Carlo (MCMC) Package |

mcmcplots | Create Plots from MCMC Output |

mcmcse | Monte Carlo Standard Errors for MCMC |

MCMChybridGP | Hybrid Markov chain Monte Carlo using Gaussian Processes |

mco | Multi criteria optimization algorithms and related functions |

Mcomp | Data from the M-competitions |

MCPAN | Multiple comparisons using normal approximation |

McParre | Run a Regenerative Markov chain in Parallel on a Cluster |

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 | Nonparametric spatial data analysis |

MCUSUM | Multivariate Cumulative Sum (MCUSUM) Control Chart |

mda | Mixture and flexible discriminant analysis |

mded | Measuring the difference between two empirical distributions |

MDM | Multinomial Diversity Model |

MDR | Detect gene-gene interactions using multifactor dimensionality reduction |

meboot | Maximum Entropy Bootstrap for Time Series |

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 |

mefa | Multivariate Data Handling in Ecology and Biogeography |

mefa4 | Multivariate Data Handling with S4 Classes and Sparse Matrices |

meifly | Interactive model exploration using GGobi |

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 |

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. |

Metabonomic | GUI for Metabonomic Analysis |

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 |

metaLik | Likelihood inference in meta-analysis and meta-regression models. |

metaMA | Meta-analysis for MicroArrays |

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 |

metatest | Fit and test metaregression models |

Meth27QC | Meth27QC: sample quality analysis, and sample control analysis |

MethComp | Functions for analysis of method comparison studies. |

methods | Formal Methods and Classes |

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 |

MEWMA | Multivariate Exponentially Weighted Moving Average (MEWMA) Control Chart |

MExPosition | Multi-table ExPosition |

MFDA | Model Based Functional Data Analysis |

MFDF | Modeling Functional Data in Finance |

mFilter | Miscellaneous time series filters |

mfp | Multivariable Fractional Polynomials |

MFSAS | Creation and Evaluation of Multilevel Fixed and Sequential Sampling Plans |

mgcv | Mixed GAM Computation Vehicle with GCV/AIC/REML smoothness estimation |

mgpd | mgpd: Functions for multivariate generalized Pareto distribution (MGPD of Type II) |

mgraph | Graphing map attributes and non-map variables in R |

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 |

MChtest | Monte Carlo hypothesis tests with Sequential Stopping |

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 |

microbenchmark | Sub microsecond accurate timing functions. |

MIfuns | Pharmacometric tools for data preparation, modeling, simulation, and reporting |

MigClim | Implementing dispersal into species distribution models |

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 |

Miney | Implementation of the Well-Known Game to Clear Bombs from a Given Field (Matrix) |

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 |

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 |

miscFuncs | Miscellaneous Useful Functions |

MiscPsycho | Miscellaneous Psychometric Analyses |

miscTools | Miscellanneous 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) |

mitools | Tools for multiple imputation of missing data |

mix | Estimation/multiple Imputation for Mixed Categorical and Continuous Data |

mixAK | Mixture of methods including mixtures |

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 |

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 |

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 |

MLDA | Methylation Linear Discriminant Analysis (MLDA) |

MLDS | Maximum Likelihood Difference Scaling |

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 |

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 |

MM | The multiplicative multinomial distribution |

mmand | Mathematical Morphology in Any Number of Dimensions |

mmap | Map Pages of Memory |

mmcm | Modified Maximum Contrast Method |

mmds | Mixture Model Distance Sampling (mmds) |

mmeln | MMELN : Estimation of multinormal mixture distribution. |

mmeta | Multivariate Meta-Analysis Using Sarmanov Beta Prior Distributions |

MMIX | Model selection uncertainty and model mixing |

mmm2 | Multivariate marginal models with shared regression parameters |

mmod | Modern measures of population differentiation |

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 | Model based Random Forest analysis |

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 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 |

modTempEff | Modelling temperature effects using time series data |

moduleColor | Basic module functions |

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 |

monmlp | Monotone multi-layer perceptron neural network |

monomvn | Estimation for multivariate normal and Student-t data with monotone missingness |

monreg | Nonparametric monotone regression |

moonsun | Basic astronomical calculations with R |

MorseGen | Simple raw data generator based on user-specified summary statistics. |

MortalitySmooth | Smoothing and forecasting Poisson counts with P-splines |

mosaic | Project MOSAIC (mosaic-web.org) statistics and mathematics teaching utilities |

motmot | Models of Trait Macroevolution on Trees |

moult | Models for Analysing Moult 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 |

MplusAutomation | Automating Mplus Model Estimation and Interpretation |

mpm | Multivariate Projection Methods |

mpMap | Multi-parent RIL genetic analysis |

mpmcorrelogram | Multivariate Partial Mantel Correlogram |

mpoly | Symbolic computation and more with multivariate polynomials |

mprobit | Multivariate probit model for binary/ordinal response |

mpt | Multinomial Processing Tree (MPT) Models |

MPTinR | Analyze Multinomial Processing Tree Models |

MPV | Data Sets from Montgomery, Peck and Vining's Book |

mra | Analysis of Mark-Recapture data |

mratios | Inferences for ratios of coefficients in the general linear model |

MRCE | MRCE |

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. |

msap | Statistical analysis for Methylation-Sensitive Amplification Polimorphism data |

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 |

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 |

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 |

mtcreator | Creating MAGE-TAB files using mtcreator |

mtsdi | Multivariate time series data imputation |

MTSKNN | Multivariate two-sample tests based on K-nearest-neighbors |

MUCflights | Munich Franz-Josef-Strauss Airport Pattern Analysis |

mugnet | Mixture of Gaussian Bayesian Network Model |

muhaz | Hazard Function Estimation in Survival Analysis |

multcomp | Simultaneous Inference in General Parametric Models |

multcompView | Visualizations of Paired Comparisons |

MultEq | Multiple Equivalence Tests and Simultaneous Confidence Intervals |

multibiplotGUI | Multibiplot Analysis in R |

Multiclasstesting | Performance of N-ary classification testing |

multicool | Permutations of multisets in cool-lex order. |

MultiChIPmixHMM | MultiChIPmixHMM |

MultiLCIRT | Multidimensional latent class Item Response Theory models |

multilevel | Multilevel Functions |

multinomRob | Robust Estimation of Overdispersed Multinomial Regression Models |

MultiOrd | Generation of multivariate ordinal variates. |

MultiPhen | MultiPhen, a package for the genetic association testing of multiple phenotypes |

multiPIM | Variable Importance Analysis with Population Intervention Models |

multipol | multivariate polynomials |

multisensi | Multivariate Sensitivity Analysis |

multitable | Simultaneous manipulation of multiple arrays of data, with data.list objects |

multitaper | Multitaper Spectral Analysis |

multivator | A multivariate emulator |

multmod | Testing of multiple outcomes |

multxpert | Common Multiple Testing Procedures and Gatekeeping Procedures |

muma | Metabolomic Univariate and Multivariate Analysis |

MuMIn | Multi-model inference |

munfold | Metric Unfolding |

munsell | Munsell colour system |

muRL | Mailmerge using R, LaTeX, and the Web |

mutatr | Mutable objects for R. |

mutoss | Unified multiple testing procedures |

mutossGUI | A graphical user interface for the MuToss Project |

MVA | An Introduction to Applied Multivariate Analysis with R |

mvabund | statistical methods for analysing multivariate abundance data |

MVB | Mutivariate Bernoulli log-linear model |

mvbutils | Workspace organization, code and documentation editing, package prep and editing, etc. |

mvc | Multi-View Clustering |

mvmeta | Multivariate meta-analysis and meta-regression |

mvna | Nelson-Aalen estimator of the cumulative hazard in multistate models |

mvngGrAd | Software for moving grid adjustment in plant breeding field trials |

mvnmle | ML estimation for multivariate normal data with missing values. |

mvnormtest | Normality test for multivariate variables |

mvoutlier | Multivariate outlier detection based on robust methods |

mvpart | Multivariate partitioning |

MVPARTwrap | MVPARTwrap: Additional functionnalities for package mvpart. |

MVpower | Give power for a given effect size using multivariate classification methods |

mvProbit | Multivariate Probit Models |

MVR | Mean-Variance Regularization |

mvsf | Shapiro-Francia Multivariate Normality Test |

mvShapiroTest | Generalized Shapiro-Wilk test for multivariate normality |

mvtBinaryEP | Generates Correlated Binary Data |

mvtmeta | Multivariate meta-analysis |

mvtnorm | Multivariate Normal and t Distributions |

mvtsplot | Multivariate Time Series Plot |

mxkssd | Efficient mixed-level k-circulant supersaturated designs |

myepisodes | MyEpisodes RSS/API functions |

nacopula | Nested Archimedean Copulas |

NADA | Nondetects And Data Analysis for environmental data |

nadiv | Functions to construct non-additive genetic relatedness matrices |

nanop | tools for nanoparticle simulation and PDF calculation |

NanoStringNorm | Normalize NanoString miRNA and mRNA data |

NbClust | An examination of indices for determining the number of clusters : NbClust Package |

NBDdirichlet | NBD-Dirichlet model of consumer buying behavior for marketing research |

nbpMatching | functions for non-bipartite optimal matching |

NBPSeq | Negative Binomial Models for RNA-Sequencing Data |

NCBI2R | NCBI2R-An R package to navigate and annotate genes and SNPs |

ncdf | Interface to Unidata netCDF data files |

ncf | spatial nonparametric covariance functions |

ncg | Computes the noncentral gamma function |

ncvreg | Regularization paths for SCAD- and MCP-penalized regression models |

ndl | Naive Discriminative Learning |

ndvits | NDVI Time series extraction and analysis |

neariso | Near-Isotonic Regression |

NeatMap | Non-clustered heatmap alternatives |

negenes | Estimating the number of essential genes in a genome |

neldermead | R port of the Scilab neldermead module |

NeMo | Exceptionnal Network Motifs in biological networks |

NestedCohort | Survival Analysis for Cohorts with Missing Covariate Information |

NetCluster | Clustering for networks |

NetComp | Network Generation and Comparison |

NetData | Network Data for McFarland's SNA R labs |

NetIndices | Estimating network indices, including trophic structure of foodwebs in R |

NetPreProc | NetPreProc: Network Pre-Processing and normalization. |

network | Classes for Relational Data |

NetworkAnalysis | Statistical inference on populations of weighted or unweighted networks. |

networkDynamic | Dynamic Extensions for Network Objects |

networksis | Simulate bipartite graphs with fixed marginals through sequential importance sampling |

neuralnet | Training of neural networks |

neuroblastoma | Neuroblastoma |

neuRosim | Functions to generate fMRI data including activated data, noise data and resting state data. |

nFactors | Parallel Analysis and Non Graphical Solutions to the Cattell Scree Test |

nfda | Nonparametric Functional Data Analysis |

nFDR | Nonparametric Estimate of FDR Based on Bernstein Polynomials |

nga | NGA Earthquake Ground Motion Prediction Equations |

ngspatial | Classes for Spatial Data |

NHPoisson | Modelling and validation of non homogeneous Poisson processes |

NightDay | Night and Day Boundary Plot Funtion |

Nippon | Japanese utility functions and data |

NISTnls | Nonlinear least squares examples from NIST |

nlADG | Regression in the Normal Linear ADG Model |

nleqslv | Solve systems of non linear equations |

nlme | Linear and Nonlinear Mixed Effects Models |

nlmeODE | Non-linear mixed-effects modelling in nlme using differential equations |

nlmrt | Functions for nonlinear least squares solutions |

nloptr | R interface to NLopt |

nlreg | Higher Order Inference for Nonlinear Heteroscedastic Models |

NLRoot | searching for the root of equation |

nlrwr | Nonlinear regression with R |

nls2 | Non-linear regression with brute force |

nlsmsn | Fitting nonlinear models with scale mixture of skew-normal distributions. |

nlstools | Tools for nonlinear regression diagnostics |

NlsyLinks | Utilities and kinship information for Behavior Genetics and Developmental research using the NLSY. |

nlt | A nondecimated lifting transform for signal denoising |

nltm | Non-linear Transformation Models |

nlts | (non)linear time series analysis |

NMF | Algorithms and framework for Nonnegative Matrix Factorization (NMF). |

NMFN | Non-negative Matrix Factorization |

NMMAPSlite | NMMAPS Data Lite |

NMOF | Numerical Methods and Optimization in Finance |

NMRS | NMR Spectroscopy |

nnclust | Nearest-neighbour tools for clustering |

nnet | Feed-forward Neural Networks and Multinomial Log-Linear Models |

nnls | The Lawson-Hanson algorithm for non-negative least squares (NNLS) |

nodeHarvest | Node Harvest for regression and classification |

noia | Implementation of the Natural and Orthogonal InterAction (NOIA) model |

nonbinROC | ROC-type analysis for non-binary gold standards |

nor1mix | Normal (1-d) Mixture Models (S3 Classes and Methods) |

norm | Analysis of multivariate normal datasets with missing values |

NormalGamma | Normal-gamma convolution model |

normalp | Package for exponential power distributions (EPD) |

NORMT3 | Evaluates complex erf, erfc, Faddeeva, and density of sum of Gaussian and Student's t |

normwhn.test | Normality and White Noise Testing |

nortest | Tests for Normality |

notifyR | Send push notifications to your smartphone via pushover.net (ACCOUNT REQUIRED!) |

np | Nonparametric kernel smoothing methods for mixed data types |

nparcomp | nparcomp-package |

nparLD | Nonparametric Analysis of Longitudinal Data in Factorial Experiments |

npde | Normalised prediction distribution errors for nonlinear mixed-effect models |

NPHMC | Sample Size Calculation for the Proportional Hazards Cure Model |

nplplot | Plotting non-parametric linkage results |

npmlreg | Nonparametric maximum likelihood estimation for random effect models |

NPMPM | tertiary probabilistic model in predictive microbiology for use in food manufacture |

npmv | Nonparametric Comparison of Multivariate Samples |

nppbib | Nonparametric Partially-Balanced Incomplete Block Design Analysis |

NPsimex | Nonparametric Smoothing for contaminated data using Simulation-Extrapolation |

npst | Generalization of Hewitt's Seasonality Test |

NRAIA | Data sets from "Nonlinear Regression Analysis and Its Applications" |

NSA | Post-normalization of total copy numbers |

nsRFA | Non-supervised Regional Frequency Analysis |

nullabor | Tools for graphical inference |

numConversion | Test of accuracy of formatting numbers. |

numDeriv | Accurate Numerical Derivatives |

nutshell | Data for "R in a Nutshell" |

nvis | Combination of visualization functions for nuclear data using ggplot2 and ggcolpairs. |

nws | R functions for NetWorkSpaces and Sleigh |

OAIHarvester | Harvest Metadata Using OAI-PMH v2.0 |

Oarray | Arrays with arbitrary offsets |

objectProperties | A factory of self-describing properties. |

objectSignals | objectSignals |

obliclus | Cluster-based factor rotation |

oblique.tree | Oblique Trees for Classification Data |

obliqueRF | Oblique Random Forests from Recursive Linear Model Splits |

obsSens | Sensitivity analysis for Observational studies. |

oc | OC Roll Call Analysis Software. |

occ | Estimates PET neuroreceptor occupancies |

oce | Analysis of Oceanographic data |

ocomposition | Gibbs sampler for ordered compositional data |

ODB | Open Document Databases (.odb) management |

odesolve | Solvers for Ordinary Differential Equations |

odfWeave | Sweave processing of Open Document Format (ODF) files |

odfWeave.survey | Support for odfWeave on the survey package |

odprism | Optimal design and performance of random intercept and slope models. |

Ohmage | R Client for Mobilize/Andwellness server |

OIdata | Data sets and supplements (OpenIntro) |

OIsurv | Survival analysis supplement to OpenIntro guide |

OjaNP | Multivariate Methods Based on the Oja Median and Related Concepts |

okmesonet | Retrieve Oklahoma Mesonet climatological data |

OligoSpecificitySystem | Oligo Specificity System |

OLScurve | OLS growth curve trajectories |

omd | filter the molecular descriptors for QSAR |

oncomodel | Maximum likelihood tree models for oncogenesis |

Oncotree | Estimating oncogenetic trees |

OneHandClapping | Prediction of condition-specific transcription factor interactions |

onemap | Software for constructing genetic maps in experimental crosses: full-sib, RILs, F2 and backcrosses |

onion | octonions and quaternions |

OOmisc | Ozgur-Ozlem Miscellaneous |

OPE | Outer-product emulator |

opefimor | Option Pricing and Estimation of Financial Models in R |

openair | Tools for the analysis of air pollution data |

opencpu.demo | OpenCPU Demo apps. |

opencpu.encode | opencpu object encoder/decoder |

openintro | OpenIntro data sets and supplemental functions |

openNLP | openNLP Interface |

openNLPmodels.en | openNLP Models for English |

openNLPmodels.es | openNLP Models for Spanish |

OpenRepGrid | Tools to analyse repertory grid data |

OpenStreetMap | Access to open street map raster images |

operators | Additional binary operators for the R language |

OPI | Open Perimetry Interface |

opm | Tools for analysing OmniLog(R) Phenotype Microarray data |

oposSOM | Package for analysis and visualization of metagenes |

ops | Optimal Power Space Transformation |

optBiomarker | Estimation of optimal number of biomarkers for two-group microarray based classifications at a given error tolerance level for various classification rules |

OptimalCutpoints | Computing optimal cutpoints in diagnostic tests |

optimbase | R port of the Scilab optimbase module |

optimsimplex | R port of the Scilab optimsimplex module |

optimx | A Replacement and Extension of the optim() Function |

optmatch | Functions for optimal matching |

optparse | Command line option parser. |

orclus | ORCLUS subspace clustering |

ORCME | Order Restricted Clustering for Microarray Experiments |

orddom | Ordinal Dominance Statistics |

ORDER2PARENT | Estimate parent distributions with data of several order statistics |

OrdFacReg | Least squares, logistic, and Cox-regression with ordered predictors |

ordinal | Regression Models for Ordinal Data |

OrdMonReg | Compute least squares estimates of one bounded or two ordered isotonic regression curves |

ordPens | Selection and/or Smoothing of Ordinal Predictors |

OrgMassSpecR | Organic Mass Spectrometry |

ORIClust | Order-restricted Information Criterion-based Clustering Algorithm |

orientlib | Support for orientation data |

orloca | The package deals with Operations Research LOCational Analysis models |

orloca.es | Spanish version of orloca package |

ORMDR | ORMDR |

oro.dicom | Rigorous - DICOM Input / Output |

oro.nifti | Rigorous - NIfTI+ANALYZE+AFNI Input / Output |

oro.pet | Rigorous - Positron Emission Tomography |

orQA | Order Restricted Assessment Of Microarray Titration Experiments |

orsk | Converting Odds Ratio to Relative Risk in Cohort Studies with Partial Data Information |

orth | Multivariate Logistic Regressions Using Orthogonalized Residuals. |

orthogonalsplinebasis | Orthogonal Bspline Basis Functions |

orthopolynom | Collection of functions for orthogonal and orthonormal polynomials |

osDesign | Design and analysis of observational studies |

osmar | OpenStreetMap and R |

ouch | Ornstein-Uhlenbeck models for phylogenetic comparative hypotheses |

outliers | Tests for outliers |

OUwie | Analysis of evolutionary rates in an OU framework |

oz | Plot the Australian coastline and states |

p2distance | Welfare's Synthetic Indicator |

p3state.msm | Analyzing survival data |

pa | Performance Attribution for Equity Portfolios |

pack | Convert values to/from raw vectors |

packClassic | Toy example of Pack Classic |

packdep | Mapping dependencies among R packages |

packS4 | Toy example of S4 package |

pacose | iPACOSE, PACOSE and other methods for covariance selection |

pairedCI | Confidence intervals for the ratio of locations and for the ratio of scales of two paired samples |

PairedData | Paired Data Analysis |

pairheatmap | A tool for comparing heatmaps |

PairTrading | classical pair trading based on cointegration in finance |

PairViz | Visualization using Eulerian tours and Hamiltonian decompositions |

pairwiseCI | Confidence intervals for two sample comparisons |

palaeoSig | Significance tests for palaeoenvironmental reconstructions |

paleoMAS | Paleoecological Analysis |

paleotree | Paleontological and Phylogenetic Analyses of Evolution |

paleoTS | Analyze paleontological time-series |

paloma | Poisson Approximation for LOcal Motif Assessment |

paltran | WA, WA-PLS, MW for paleolimnology |

pamctdp | Principal Axes Methods for Contingency Tables with Partition Structures on Rows and Columns |

pamm | Power analysis for random effects in mixed models |

pamr | Pam: prediction analysis for microarrays |

pan | Multiple imputation for multivariate panel or clustered data |

pander | An R pandoc writer |

panel | Panel |

parallel | Support for Parallel computation in R |

ParamHelpers | Helpers for parameters in black-optimization, tuning and maching learning. |

paramlink | Parametric linkage analysis in R |

paran | Horn's Test of Principal Components/Factors |

parcor | Regularized estimation of partial correlation matrices |

parfm | Parametric Frailty Models |

parfossil | Parallelized functions for palaeoecological and palaeogeographical analysis |

parmigene | Parallel Mutual Information estimation for Gene Network reconstruction. |

parser | Detailed R source code parser |

partDSA | Partitioning using deletion, substitution, and addition moves |

partitionMetric | Compute a distance metric between two partitions of a set |

partitions | Additive partitions of integers |

partsm | Periodic Autoregressive Time Series Models |

party | A Laboratory for Recursive Partytioning |

partykit | A Toolkit for Recursive Partytioning |

parviol | Parviol |

PAS | Polygenic Analysis System (PAS) |

pastecs | Package for Analysis of Space-Time Ecological Series |

PASWR | PROBABILITY and STATISTICS WITH R |

pathClass | Classification using biological pathways as prior knowledge |

pathmox | Segmentation Trees in Partial Least Squares Path Modeling |

PAWL | Implementation of the PAWL algorithm |

pbapply | Adding Progress Bar to '*apply' Functions |

pbatR | P2BAT |

PBImisc | A set of datasets used in my classes or in the book ,,Modele liniowe i mieszane w R, wraz z przykladami w analizie danych'' |

pbivnorm | Vectorized Bivariate Normal CDF |

pbkrtest | Parametric bootstrap and Kenward Roger based methods for mixed model comparison |

PBSadmb | PBS ADMB |

PBSddesolve | Solver for Delay Differential Equations |

PBSmapping | Mapping Fisheries Data and Spatial Analysis Tools |

PBSmodelling | GUI Tools Made Easy: Interact with Models, Explore Data, Give Dynamic Presentations |

pcaL1 | Three L1-Norm PCA Methods |

pcalg | Estimation of CPDAG/PAG and causal inference using the IDA algorithm |

pcaPA | Parallel Analysis for ordinal and numeric data using polychoric and Pearson correlations with S3 classes. |

pcaPP | Robust PCA by Projection Pursuit |

pcenum | Permutations and Combinations Enumeration |

PCICt | Implementation of POSIXct work-alike for 365 and 360 day calendars. |

PCIT | PCIT algorithm - Partial Correlation Coefficient with Information Theory |

pcrcoal | A package implementing the coalescent approach to PCR simulation developed by Weiss and von Haeseler (NAR, 1997). |

PCS | Calculate the probability of correct selection (PCS) |

pcse | Panel-Corrected Standard Error Estimation in R |

pcurve | Principal curve analysis |

pdc | Permutation Distribution Clustering |

pdfCluster | Cluster analysis via nonparametric density estimation |

pdist | Partitioned Distance Function |

Peak2Trough | Estimation of the peak-to-trough ratio of a seasonal variation component |

Peaks | Peaks |

pear | Package for Periodic Autoregression Analysis |

PearsonDS | Pearson Distribution System |

PearsonICA | Independent component analysis using score functions from the Pearson system |

pec | Prediction Error Curves for Survival Models |

pedantics | Functions to facilitate power and sensitivity analyses for genetic studies of natrual popualtions |

pedigree | Pedigree functions |

pedigreemm | Pedigree-based mixed-effects models |

pegas | Population and Evolutionary Genetics Analysis System |

PEIP | Functions for Aster Book on Inverse Theory |

penalized | L1 (lasso and fused lasso) and L2 (ridge) penalized estimation in GLMs and in the Cox model |

penalizedLDA | Penalized classification using Fisher's linear discriminant |

penalizedSVM | Feature Selection SVM using penalty functions |

pencopula | Flexible Copula Density Estimation with Penalized Hierarchical B-Splines |

pendensity | Density Estimation with a Penalized Mixture Approach |

penDvine | Flexible Pair-Copula Estimation in D-vines with Penalized Splines |

pensim | Simulation of high-dimensional data and parallelized repeated penalized regression |

peperr | Parallelised Estimation of Prediction Error |

pequod | Moderated regression package |

PerfMeas | PerfMeas: Performance Measures for ranking and classification tasks |

PerformanceAnalytics | Econometric tools for performance and risk analysis. |

perm | Exact or Asymptotic permutation tests |

PermAlgo | Permutational algorithm to simulate survival data |

permax | permax |

permtest | Permutation test to compare variability within and distance between two groups |

permute | Functions for generating restricted permutations of data |

PERregress | Regression Functions and Datasets |

perturb | Tools for evaluating collinearity |

pesticides | Analysis of single serving and composite pesticide residue measurements |

PET | Simulation and Reconstruction of PET Images |

PF | Functions related to prevented fraction. |

pfda | Paired Functional Data Analysis |

pgam | Poisson-Gamma Additive Models. |

pgirmess | Data analysis in ecology |

pglm | panel generalized linear model |

pGLS | Generalized Least Square in comparative Phylogenetics |

pgmm | Parsimonious Gaussian mixture models |

pgnorm | The p-generalized normal distribution |

pgs | Precision of Geometric Sampling |

phangorn | Phylogenetic analysis in R |

PhaseType | Inference for Phase-type Distributions |

phcfM | Modelling anthropogenic deforestation |

pheatmap | Pretty Heatmaps |

phenology | Tools to manage a parametric function that describes phenology |

phia | Post-Hoc Interaction Analysis |

phitest | Nonparametric goodness-of-fit methods based on phi-divergences |

phmm | Proportional Hazards Mixed-effects Model (PHMM) |

phom | Persistent Homology in R |

phonR | R tools for phoneticians and phonologists |

phonTools | A collection of functions useful for phonetics work. |

phull | p-hull: a generalization of convex hull, X-Y hull and bounding rectangle |

PhViD | PhViD: an R package for PharmacoVigilance signal Detection. |

phybase | Basic functions for phylogenetic analysis |

phyclust | Phylogenetic Clustering (Phyloclustering) |

phyext | An extension of some of the classes in phylobase. Tree objects now support subnodes on branches |

phylobase | Base package for phylogenetic structures and comparative data |

phyloclim | Integrating phylogenetics and climatic niche modelling |

PHYLOGR | Functions for phylogenetically based statistical analyses |

phylosim | R packge for simulating biological sequence evolution |

phylotools | Phylogenetic tools for Eco-phylogenetics |

PhysicalActivity | Process Physical Activity Accelerometer Data |

phytools | Phylogenetic Tools for comparative biology (and other things) |

pi0 | Estimating the proportion of true null hypotheses for FDR |

picante | R tools for integrating phylogenies and ecology |

PIPS | Predicted Interval Plots |

pixmap | Bitmap Images (``Pixel Maps'') |

PK | Basic Non-Compartmental Pharmacokinetics |

PKfit | A Data Analysis Tool for Pharmacokinetics |

pkgmaker | Package development utilities |

PKgraph | Model diagnostics for population pharmacokinetic models |

PKmodelFinder | Software for Pharmacokinetic model |

PKPDmodels | Pharmacokinetic/pharmacodynamic models |

PKreport | A reporting pipeline for checking population pharmacokinetic model assumption |

pks | Probabilistic Knowledge Structures |

PKtools | unified computational interfaces for pop PK |

PL.popN | Population Size Estimation |

plan | Tools for project planning |

planar | Multilayer optics |

PlayerRatings | Dynamic Updating Methods For Player Ratings Estimation |

playitbyr | Representing and exploring data through sound |

playwith | A GUI for interactive plots using GTK+ |

plgp | Particle Learning of Gaussian Processes |

plink | IRT Separate Calibration Linking Methods |

PLIS | Multiplicity control using Pooled LIS statistic |

plm | Linear Models for Panel Data |

plmDE | Additive partially linear models for differential gene expression analysis |

pln | Polytomous logit-normit (graded logistic) model estimation |

plotGoogleMaps | Plot SP data as HTML map mashup over Google Maps |

plotKML | Visualization of spatial and spatio-temporal objects in Google Earth |

plotmo | Plot a model's response while varying the values of the predictors. |

plotpc | Plot principal component histograms around a scatter plot. |

plotrix | Various plotting functions |

plotSEMM | Graphing nonlinear latent variable interactions in SEMM |

plRasch | Log Linear by Linear Asscociation models |

pls | Partial Least Squares and Principal Component regression |

plsdof | Degrees of Freedom and Statistical Inference for Partial Least Squares Regression |

plsgenomics | PLS analyses for genomics |

plspm | Partial Least Squares Data Analysis Methods |

plugdensity | Plug-in Kernel Density Estimation |

plumbr | Mutable and dynamic data models |

plus | Penalized Linear Unbiased Selection |

plyr | Tools for splitting, applying and combining data |

PMA | Penalized Multivariate Analysis |

pmc | Phylogenetic Monte Carlo |

pmg | Poor Man's GUI |

pmlr | Penalized Multinomial Logistic Regression |

pmml | Generate PMML for various models |

pmr | Probability Models for Ranking Data |

png | Read and write PNG images |

poibin | The Poisson Binomial Distribution |

PoiClaClu | Classification and clustering of sequencing data based on a Poisson model |

poilog | Poisson lognormal and bivariate Poisson lognormal distribution |

poisson.glm.mix | Fit high dimensional mixtures of Poisson GLM's |

PoissonSeq | Significance analysis of sequencing data based on a Poisson log linear model |

poistweedie | Poisson-Tweedie exponential family models |

poLCA | Polytomous variable Latent Class Analysis |

polspline | Polynomial spline routines |

polyapost | Simulating from the Polya posterior |

polycor | Polychoric and Polyserial Correlations |

polydect | polydect |

polynom | A collection of functions to implement a class for univariate polynomial manipulations |

PolynomF | Polynomials in R |

polysat | Tools for Polyploid Microsatellite Analysis |

polySegratio | Simulate and test marker dosage for dominant markers in autopolyploids |

polySegratioMM | Bayesian mixture models for marker dosage in autopolyploids |

polytomous | Polytomous logistic regression for fixed and mixed effects |

polywog | Bootstrapped Basis Regression with Oracle Model Selection |

Pomic | Pattern Oriented Modelling Information Criterion |

PoMoS | Polynomial (ordinary differential equation) Model Search |

pomp | Statistical inference for partially observed Markov processes |

pooh | Partial Orders and Relations |

popbio | Construction and analysis of matrix population models |

popdemo | Provides Tools For Demographic Modelling Using Projection Matrices |

popgen | Statistical and Population Genetics |

PopGenKit | Useful functions for (batch) file conversion and data resampling in microsatellite datasets |

PopGenome | Population genetic analysis |

popPK | Summary of Population Pharmacokinetic Analysis |

portes | Portmanteau Tests for Time Series Models |

portfolio | Analysing equity portfolios |

portfolioSim | Framework for simulating equity portfolio strategies |

postCP | A package to estimate posterior probabilities in change-point models using constrained HMM |

POT | Generalized Pareto Distribution and Peaks Over Threshold |

potts | Markov Chain Monte Carlo for Potts Models |

PottsUtils | Utility Functions of the Potts Models |

powell | Powell's UObyQA algorithm |

powerGWASinteraction | Power Calculations for Interactions for GWAS |

powerMediation | Power/Sample size calculation for mediation analysis |

powerpkg | Power analyses for the affected sib pair and the TDT design |

powerSurvEpi | Power and sample size calculation for survival analysis of epidemiological studies |

PowerTOST | Power and Sample size based on two one-sided t-tests (TOST) for (bio)equivalence studies |

PP | Person Parameter estimation |

ppcor | Partial and Semi-partial (Part) correlation |

ppiPre | Predict protein-protein interactions based on functional and topological similarities. |

ppls | Penalized Partial Least Squares |

ppMeasures | Point pattern distances and prototypes. |

pps | Functions for PPS sampling |

ppstat | Point Process Statistics |

PPtree | Projection pursuit classification tree |

prabclus | Functions for clustering of presence-absence, abundance and multilocus genetic data |

pracma | Practical Numerical Math Functions |

pragma | Provides a pragma / directive / keyword syntax for R. |

PrecipStat | Precipitation Statistics |

predbayescor | Classification rule based on Bayesian naive Bayes models with feature selection bias corrected |

PredictABEL | Assessment of risk prediction models |

PredictiveRegression | Prediction Intervals for Three Basic Statistical Models |

predmixcor | Classification rule based on Bayesian mixture models with feature selection bias corrected |

prefmod | Utilities to fit paired comparison models for preferences |

PresenceAbsence | Presence-Absence Model Evaluation. |

prettyGraphs | prettyGraphs: publication-quality graphics. |

prettyR | Pretty descriptive stats. |

prevR | Estimating regional trends of a prevalence from a DHS |

prim | Patient Rule Induction Method (PRIM) |

primer | Functions and data for A Primer of Ecology with R |

princurve | Fits a Principal Curve in Arbitrary Dimension |

PrivateLR | Differentially private regularized logistic regression |

prLogistic | Estimation of Prevalence Ratios using Logistic Models |

prob | Elementary Probability on Finite Sample Spaces |

probemapper | Connects to QBRC's ProbeMapper platform |

ProbForecastGOP | Probabilistic weather forecast using the GOP method |

pROC | display and analyze ROC curves |

processdata | Process Data |

ProDenICA | Product Density Estimation for ICA using tilted Gaussian density estimates |

prodlim | Product Limit Estimation for event history and survival analysis |

productplots | |

profdpm | Profile Dirichlet Process Mixtures |

ProfessR | Grades Setting and Exam Maker |

ProfileLikelihood | Profile Likelihood for a Parameter in Commonly Used Statistical Models |

profileModel | Tools for profiling inference functions for various model classes |

profr | An alternative display for profiling information |

proftools | Profile Output Processing Tools for R |

ProgGUIinR | support package for "Programming Graphical User Interfaces in R" |

proj4 | A simple interface to the PROJ.4 cartographic projections library |

ProjectTemplate | Automates the creation of new statistical analysis projects. |

PropCIs | Various confidence interval methods for proportions |

proptest | Tests of the Proportional Hazards Assumption |

proto | Prototype object-based programming |

protoclust | Hierarchical clustering with prototypes |

proxy | Distance and Similarity Measures |

PSAgraphics | Propensity Score Analysis Graphics |

PSCBS | Analysis of Parent-Specific DNA Copy Numbers |

pscl | Political Science Computational Laboratory, Stanford University |

PSCN | Parent Specific DNA Copy Number Estimation |

pseudo | Pseudo - observations |

psgp | Projected Spatial Gaussian Process (psgp) methods |

PSM | Non-Linear Mixed-Effects modelling using Stochastic Differential Equations. |

pso | Particle Swarm Optimization |

pspearman | Spearman's rank correlation test |

pspline | Penalized Smoothing Splines |

psy | Various procedures used in psychometry |

psych | Procedures for Psychological, Psychometric, and Personality Research |

psychometric | Applied Psychometric Theory |

psychomix | Psychometric Mixture Models |

psychotools | Infrastructure for Psychometric Modeling |

psychotree | Recursive Partitioning Based on Psychometric Models |

psyphy | Functions for analyzing psychophysical data in R |

PTAk | Principal Tensor Analysis on k modes |

ptinpoly | Point-In-Polyhedron Test (2D and 3D) |

PtProcess | Time Dependent Point Process Modelling |

ptw | Parametric Time Warping |

PVAClone | Population Viability Analysis with Data Cloning |

pvclass | P-values for Classification |

pvclust | Hierarchical Clustering with P-Values via Multiscale Bootstrap Resampling |

PVR | Computes PVR and PSR |

pwr | Basic functions for power analysis |

PwrGSD | Power in a Group Sequential Design |

pwt | Penn World Table |

pxR | PC-Axis with R |

pycno | Pycnophylactic Interpolation |

pyramid | Functions to draw population pyramid |

qat | Quality Assurance Toolkit |

QCA | Qualitative Comparative Analysis |

QCA3 | Yet another package for Qualitative Comparative Analysis |

QCAGUI | QCA Graphical User Interface |

qcc | Quality Control Charts |

qgraph | Network representations of relationships in data |

qLearn | Estimation and inference for Q-learning |

qlspack | Quasi Least Square Package |

QLSpline | QLSpline |

qmap | Quantile-mapping for post-processing climate model output |

qmrparser | Parser combinator in R |

qp | q-order partial correlation graph search algorithm |

qpcR | Modelling and analysis of real-time PCR data |

qPCR.CT | qPCR data analysis and plot package |

qqplotter | Quantile-quantile analysis of 24-hr precipitation using a frame work based on the exponential distribution |

qrfactor | Simultaneous simulation of Q and R mode factor analyses |

QRM | Provides R-language code to examine Quantitative Risk Management concepts |

qrnn | Quantile regression neural network |

QSARdata | Quantitative Structure Activity Relationship (QSAR) Data Sets |

QT | QT Knowledge Management System |

qtl | Tools for analyzing QTL experiments |

qtlbim | QTL Bayesian Interval Mapping |

qtlbook | Datasets for the R/qtl book |

qtlDesign | Design of QTL experiments |

qtlhot | Inference for QTL Hotspots |

qtlmt | Tools for mapping multiple complex traits |

qtlnet | Causal Inference of QTL Networks |

QTLNetworkR | Interactive software package for QTL visualization |

QTLRel | Tools for mapping of quantitative traits of genetically related individuals and calculating identity coefficients from a pedigree |

QuACN | QuACN: Quantitative Analysis of Complex Networks |

quadprog | Functions to solve Quadratic Programming Problems. |

qualityTools | Statistical Methods for Quality Science |

qualV | Qualitative Validation Methods |

quantchem | Quantitative chemical analysis: calibration and evaluation of results |

quantmod | Quantitative Financial Modelling Framework |

QuantPsyc | Quantitative Psychology Tools |

quantreg | Quantile Regression |

quantregForest | Quantile Regression Forests |

quantspec | Quantile-based Spectral Analysis of Time Series |

QuasiSeq | QuasiSeq |

quaternions | Arithmetics and linear algebra with Quaternions |

queueing | Basic Markovian queueing models |

QUIC | Estimate sparse inverse correlation matrix using regularization |

qvcalc | Quasi variances for factor effects in statistical models |

R.cache | Fast and light-weight caching (memoization) of objects |

R.devices | Enhanced methods for handling graphical devices |

R.filesets | Easy handling of and access to files organized in structured directories |

R.huge | Methods for accessing huge amounts of data [DEPRECATED] |

R.matlab | Read and write of MAT files together with R-to-Matlab connectivity |

R.methodsS3 | Utility function for defining S3 methods |

R.oo | R object-oriented programming with or without references |

R.rsp | Dynamic generation of scientific reports |

R.utils | Various programming utilities |

R0 | Estimation of R0 and real-time reproduction number from epidemics |

R1magic | Compressive Sampling: Sparse signal recovery utilities |

R2admb | ADMB to R interface functions |

R2BayesX | Estimate Structured Additive Regression Models with BayesX |

R2Cuba | Multidimensional Numerical Integration |

r2dRue | 2d Rain Use Efficience model |

R2G2 | Converting R CRAN outputs into Google Earth. |

R2HTML | HTML exportation for R objects |

R2jags | A Package for Running jags from R |

r2lh | R to LaTeX and HTML |

R2OpenBUGS | Running OpenBUGS from R |

R2PPT | Simple R Interface to Microsoft PowerPoint using rcom or RDCOMClient. |

R2STATS | A GTK GUI for fitting and comparing GLM and GLMM in R |

R2SWF | Convert R Graphics to Flash Animations |

R2wd | Write MS-Word documents from R |

R2WinBUGS | Running WinBUGS and OpenBUGS from R / S-PLUS |

R330 | An R package for Stats 330 |

r4ss | R code for Stock Synthesis |

race | Racing methods for the selection of the best |

RAD | Fit RAD models to biological data |

RadioSonde | Tools for plotting skew-T diagrams and wind profiles |

RAFM | Admixture F-model |

rainbow | Rainbow plots, bagplots and boxplots for functional data |

rake | Normalize sample weights using marginal total population weights. |

ramps | Bayesian Geostatistical Modeling with RAMPS |

randaes | Random number generator based on AES cipher |

RandForestGUI | RandForestGUI |

random | True random numbers using random.org |

random.polychor.pa | A Parallel Analysis With Polychoric Correlation Matrices |

RandomFields | Simulation and Analysis of Random Fields |

randomForest | Breiman and Cutler's random forests for classification and regression |

randomizeBE | Function to create a random list for crossover studies |

randomLCA | Random Effects Latent Class Analysis |

randomNames | Random name generating function and data set |

randomSurvivalForest | Random Survival Forests |

randtoolbox | toolbox for pseudo and quasi random number generation and RNG tests. |

RandVar | Implementation of random variables |

rangeMapper | A platform for the study of macroecology of life history traits |

RankAggreg | Weighted rank aggregation |

rankhazard | Rank-hazard plots |

RANN | Fast Nearest Neighbour Search |

rapport | A report templating system |

RArcInfo | Functions to import data from Arc/Info V7.x binary coverages |

rasclass | Supervised Raster Image Classification |

RaschSampler | Rasch Sampler |

Rassoc | Robust tests for case-control genetic association studies |

raster | Geographic analysis and modeling with raster data |

rasterVis | Visualization methods for the raster package |

rateratio.test | Exact rate ratio test |

Ratings | Model-based Ratings Figures |

rationalfun | Manipulation of Rational Functions |

RAtmosphere | Standard Atmosperic profiles |

rattle | Graphical user interface for data mining in R |

rAverage | Parameter estimation for the averaging model of Information Integration Theory |

rbamtools | Reading, manipulation and writing BAM (Binary alignment) files. |

rbenchmark | Benchmarking routine for R |

rBeta2009 | The Beta Random Number and Dirichlet Random Vector Generating Functions |

rbounds | Perform Rosenbaum bounds sensitivity tests for matched and unmatched data. |

rbugs | Fusing R and OpenBugs |

RC | Reproducible Computing |

RCALI | Calculation of the Integrated Flow of Particles between Polygons |

Rcapture | Loglinear Models for Capture-Recapture Experiments |

RCassandra | R/Cassandra interface |

rcdd | rcdd (Computational Geometry) |

rcdk | rcdk - Interface to the CDK Libraries |

rcdklibs | rcdklib - CDK libraries packaged for R |

Rcell | Microscopy Based Cytometry Data Analysis Package |

Rcgmin | Conjugate gradient minimization of nonlinear functions with box constraints |

Rclusterpp | Linkable C++ clustering |

Rcmdr | R Commander |

RcmdrPlugin.BCA | Rcmdr Plug-In for Business and Customer Analytics |

RcmdrPlugin.coin | Rcmdr Coin Plug-In |

RcmdrPlugin.depthTools | R commander Depth Tools Plug-In |

RcmdrPlugin.doBy | Rcmdr doBy Plug-In |

RcmdrPlugin.DoE | R Commander Plugin for (industrial) Design of Experiments |

RcmdrPlugin.doex | Rcmdr plugin for Stat 4309 course |

RcmdrPlugin.EACSPIR | Plugin de R-Commander para el manual EACSPIR |

RcmdrPlugin.EBM | Rcmdr Evidence Based Medicine Plug-In package |

RcmdrPlugin.epack | Rcmdr plugin for time series |

RcmdrPlugin.Export | Graphically export output to LaTeX or HTML |

RcmdrPlugin.FactoMineR | Graphical User Interface for FactoMineR |

RcmdrPlugin.HH | Rcmdr support for the HH package |

RcmdrPlugin.IPSUR | An IPSUR Plugin for the R Commander |

RcmdrPlugin.KMggplot2 | Rcmdr Plug-In for Kaplan-Meier Plot and Other Plots by Using the ggplot2 Package |

RcmdrPlugin.MAc | Meta-Analysis with Correlations (MAc) Rcmdr Plug-in |

RcmdrPlugin.MAd | Meta-Analysis with Mean Differences (MAd) Rcmdr Plug-in |

RcmdrPlugin.mosaic | Adds menu items to produce mosaic plots and assoc plots to Rcmdr |

RcmdrPlugin.MPAStats | R Commander Plug-in for MPA Statistics |

RcmdrPlugin.orloca | orloca Rcmdr Plug-in |

RcmdrPlugin.pointG | Rcmdr Graphical POINT of view for questionnaire data Plug-In |

RcmdrPlugin.PT | Some discrete exponential dispersion models: Poisson-Tweedie |

RcmdrPlugin.qcc | Rcmdr qcc Plug-In |

RcmdrPlugin.qual | Rcmdr plugin for quality control course |

RcmdrPlugin.SCDA | Rcmdr plugin for designing and analyzing single-case experiments |

RcmdrPlugin.SensoMineR | Graphical User Interface for SensoMineR |

RcmdrPlugin.SLC | SLC Rcmdr Plug-in |

RcmdrPlugin.sos | Efficiently search R Help pages |

RcmdrPlugin.StatisticalURV | Statistical URV Rcmdr Plug-In |

RcmdrPlugin.steepness | Steepness Rcmdr Plug-in |

RcmdrPlugin.survival | R Commander Plug-in for the survival Package |

RcmdrPlugin.SurvivalT | Rcmdr Survival Plug-In |

RcmdrPlugin.TeachingDemos | Rcmdr Teaching Demos Plug-In |

RcmdrPlugin.TextMining | Rcommander plugin for "tm" package |

RcmdrPlugin.UCA | UCA Rcmdr Plug-in |

RColorBrewer | ColorBrewer palettes |

rcom | R COM Client Interface and internal COM Server |

rconifers | R interface to the CONIFERS forest growth model |

Rcpp | Seamless R and C++ Integration |

RcppArmadillo | Rcpp integration for Armadillo templated linear algebra library |

RcppBDT | Rcpp bindings for the Boost Date_Time library |

rcppbugs | R binding for cppbugs |

RcppClassic | Deprecated 'classic' Rcpp API |

RcppCNPy | Rcpp bindings for NumPy files |

RcppDE | Global optimization by differential evolution in C++ |

RcppEigen | Rcpp integration for the Eigen templated linear algebra library. |

RcppExamples | Examples using Rcpp to interface R and C++ |

RcppGSL | Rcpp integration for GNU GSL vectors and matrices |

RcppSMC | Rcpp bindings for Sequential Monte Carlo |

Rcsdp | R interface to the CSDP semidefinite programming library |

rCUR | CUR decomposition package |

Rd2roxygen | Convert Rd to roxygen documentation and utilities to improve documentation |

rda | Shrunken Centroids Regularized Discriminant Analysis |

rdatamarket | Data access API for DataMarket.com |

rdetools | Relevant Dimension Estimation (RDE) in Feature Spaces |

Rdistance | Distance sampling analyses |

rDNA | R Bindings for the Discourse Network Analyzer |

Rdrools | A rules engine for R based on Drools |

Rdroolsjars | Rdrools jars |

rdryad | Dryad API interface. |

RDS | R Functions for Respondent-Driven Sampling |

Rdsm | Threads Environment for R |

rdyncall | Improved Foreign Function Interface (FFI) and Dynamic Bindings to C Libraries (e.g. OpenGL) |

ReacTran | Reactive transport modelling in 1D, 2D and 3D |

Read.isi | Automated access to old World Fertility Survey data saved in fixed-width format based on ISI-formatted codebooks. |

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

readBrukerFlexData | Reads mass spectrometry data in Bruker *flex format |

ReadImages | Image Reading Module for R |

readMLData | Reading machine learning benchmark data sets from different sources in their original format. |

readMzXmlData | Reads mass spectrometry data in mzXML format |

realized | Realized |

reams | Resampling-Based Adaptive Model Selection |

Rearrangement | Monotonize point and interval functional estimates by rearrangement |

rebmix | The Rebmix Package |

ReCiPa | Redundancy Control in Pathways databases |

recommenderlab | Lab for Developing and Testing Recommender Algorithms |

recommenderlabBX | Book-Crossing Dataset (BX) for recommenderlab |

recommenderlabJester | Jester Dataset for recommenderlab |

RecordLinkage | Record Linkage in R |

Records | Record Values and Record Times |

REEMtree | Regression Trees with Random Effects for Longitudinal (Panel) Data |

ref | References for R |

refund | Regression with Functional Data |

REGENT | REGENT: Risk Estimation for Genetic and Environmental Traits |

registry | Registry infrastructure |

reglogit | Simulation-based Regularized Logistic Regression |

regress | Gaussian linear models with linear covariance structure |

regsubseq | Detect and Test Regular Sequences and Subsequences |

regtest | Regression testing |

rehh | Searching for footprints of selection using Haplotype Homozygosity based tests |

rela | Item Analysis Package with Standard Errors |

relaimpo | Relative importance of regressors in linear models |

relations | Data Structures and Algorithms for Relations |

RelativeRisk | Relative Risk |

relax | relax -- R Editor for Literate Analysis and lateX |

relaxo | Relaxed Lasso |

reldist | Relative Distribution Methods |

relevent | Relational Event Models |

Reliability | Functions for estimating parameters in software reliability models |

reliaR | Package for some probability distributions. |

relimp | Relative Contribution of Effects in a Regression Model |

relSim | Relative Simulator |

relsurv | Relative survival |

remix | Remix your data |

rEMM | Extensible Markov Model (EMM) for Data Stream Clustering in R |

remMap | Regularized Multivariate Regression for Identifying Master Predictors |

Renext | Renewal method for extreme values extrapolation |

RenextGUI | GUI for Renext |

RepeatedHighDim | Detection of global group effect in microarrays data |

replicationDemos | Agnotology |

repolr | Repeated measures proportional odds logistic regression |

reportr | A general message and error reporting system |

reporttools | Generate LaTeX tables of descriptive statistics |

represent | Determine the representativity of two multidimensional data sets |

REQS | R/EQS Interface |

ResearchMethods | Using GUIs to help teach statistics to non-statistics students |

reshape | Flexibly reshape data. |

reshape2 | Flexibly reshape data: a reboot of the reshape package. |

reshapeGUI | A GUI for the reshape2 and plyr packages. |

ResistorArray | electrical properties of resistor networks |

ResourceSelection | Resource Selection (Probability) Functions for Use-Availability Data |

review | Manage Review Logs |

reweight | Adjustment of Survey Respondent Weights |

RExcelInstaller | Integration of R and Excel, (use R in Excel, read/write XLS files) |

RFA | Regional Frequency Analysis |

rFerns | Random ferns classifier |

RFinanceYJ | RFinanceYJ |

rfishbase | R Interface to FishBASE |

Rfit | Rank Estimation for Linear Models |

RFLPtools | Tools to analyse RFLP data |

RfmriVC | Varying stimulus coefficient fMRI models in R |

RFOC | Graphics for Spherical Distributions and Earthquake Focal Mechanisms |

RForcecom | RForcecom provides the connection to Force.com (Salesforce.com) from R. |

rfPermute | Estimate permutation p-values for importance metrics. |

Rfun | Funy application of R |

rgam | Robust Generalized Additive Model |

rgbif | Interface to the Global Biodiversity Information Facility API methods |

RGCCA | Regularized Generalized Canonical Correlation Analysis |

rgcvpack | R Interface for GCVPACK Fortran Package |

rgdal | Bindings for the Geospatial Data Abstraction Library |

rgenoud | R version of GENetic Optimization Using Derivatives |

rgeos | Interface to Geometry Engine - Open Source (GEOS) |

rgexf | An R library to build GEXF network files |

rggobi | Interface between R and GGobi |

RghcnV3 | Global Historical Climate Network Version 3 |

RGIFT | Create quizzes in GIFT Format |

rgl | 3D visualization device system (OpenGL) |

Rglpk | R/GNU Linear Programming Kit Interface |

RgoogleMaps | Overlays on Google map tiles in R |

rgp | R genetic programming framework |

rgr | The GSC Applied Geochemistry EDA Package |

RGraphics | Data and Functions from the book R Graphics, Second Edition |

rgrs | Functions to make R usage in social sciences easier (in french) |

RGtk2 | R bindings for Gtk 2.8.0 and above |

RGtk2Extras | Data frame editor and dialog making wrapper for RGtk2 |

RH2 | DBI/RJDBC interface to h2 Database |

Rhh | Calculating multilocus heterozygosity and heterozygosity-heterozygosity correlation |

RHive | R and Hive |

rhosp | Side effect risks in hospital : simulation and estimation |

rHpcc | Interface between HPCC and R |

RHRV | Heart rate variability analysis of ECG data |

RHT | Regularized Hotelling's T-square Test for Pathway (Gene Set) Analysis |

rChoiceDialogs | rChoiceDialogs collection |

ri | ri: R package for performing randomization-based inference for experiments |

ridge | Ridge Regression with automatic selection of the penalty parameter |

RiDMC | R interface to the idmclib library |

RIFS | Random Iterated Function System (RIFS) |

Rigroup | Rigroup: Provides small integer group functions |

rich | Computes and compares species richnesses |

rindex | Indexing for R |

ringscale | Ringscale |

RInside | C++ classes to embed R in C++ applications |

rioja | Analysis of Quaternary Science Data |

risaac | A fast cryptographic random number generator using ISAAC by Robert Jenkins. |

riskRegression | Risk regression for survival analysis |

RISmed | Download content from NCBI databases |

RItools | Randomization inference tools |

riv | Robust instrumental variables estimator |

RJaCGH | Reversible Jump MCMC for the analysis of CGH arrays. |

rjags | Bayesian graphical models using MCMC |

rJava | Low-level R to Java interface |

RJDBC | Provides access to databases through the JDBC interface |

rje | Miscellaneous useful functions |

Rjms | R messaging using ActiveMQ and jms |

Rjmsjars | Rjms jars |

rJPSGCS | R-interface to gene drop Java Programs for Statistical Genetics and Computational Statistics (JPSGCS) |

rjson | JSON for R |

RJSONIO | Serialize R objects to JSON, JavaScript Object Notation |

rJython | R interface to Python via Jython |

RKEA | R/KEA interface |

rknn | Random KNN Classification and Regression |

Rknots | Rknots |

Rlab | Functions and Datasets Required for ST370 class |

Rlabkey | Data exchange between R and LabKey Server |

RLastFM | R interface to last.fm API |

rlecuyer | R interface to RNG with multiple streams |

RLRsim | Exact (Restricted) Likelihood Ratio tests for mixed and additive models. |

RM2 | Revenue Management and Pricing Package |

rmac | calculate RMAC or FMAC agreement coefficients |

RMallow | Fit Multi-Modal Mallows' Models to ranking data. |

Rmalschains | Continuous Optimization using Memetic Algorithms with Local Search Chains (MA-LS-Chains) in R |

RMark | R Code for MARK Analysis |

RMAWGEN | RMAWGEN (R Multi-site Auto-regressive Weather GENerator): a package to generate daily time series from monthly mean values |

RMC | Functions for fitting Markov models |

RMediation | An R Package for Mediation Analysis Confidence Intervals |

RMendeley | Interface to Mendeley API methods |

rmeta | Meta-analysis |

rminer | Simpler use of data mining methods (e.g. NN and SVM) in classification and regression. |

Rmisc | Rmisc: Ryan Miscellaneous |

Rmixmod | An interface of MIXMOD |

rmmseg4j | R interface to the Java Chinese word segmentation system of mmseg4j |

RMongo | MongoDB Client for R |

rmongodb | R-MongoDB driver |

Rmpfr | R MPFR - Multiple Precision Floating-Point Reliable |

rms | Regression Modeling Strategies |

RMTstat | Distributions, Statistics and Tests derived from Random Matrix Theory |

RnavGraph | Using graphs as a navigational infrastructure. |

RnavGraphImageData | Some image data used in the RnavGraph package demos |

RNCBI | The java ncbi interface to R |

RNCBIAxis2Libs | Axis2 libraries for use in the R environment. |

RNCBIEUtilsLibs | EUtils libraries for use in the R environment. |

RNCEP | Obtain, organize, and visualize NCEP weather data |

rneos | rneos: XML-RPC Interface to NEOS |

RNetCDF | R Interface to NetCDF Datasets |

RNetLogo | Provides an interface to the agent-based modelling plattform NetLogo |

rngSetSeed | Initialization of the R base random number generator Mersenne-Twister with a vector of an arbitrary length. |

rngWELL | toolbox for WELL random number generators. |

rngwell19937 | WELL19937a random number generator implemented with 53 bit output |

Rniftilib | Rniftilib - R Interface to NIFTICLIB (V2.0.0: 2010-07-20) |

RNiftyReg | Medical image registration using the NiftyReg library |

ROAuth | R interface for OAuth |

RobAStBase | Robust Asymptotic Statistics |

robCompositions | Robust Estimation for Compositional Data. |

robeth | R functions for robust statistics |

robfilter | Robust Time Series Filters |

RobLox | Optimally robust influence curves and estimators for location and scale |

RobLoxBioC | Infinitesimally robust estimators for preprocessing omics data |

RobRex | Optimally robust influence curves for regression and scale |

robust | Insightful Robust Library |

RobustAFT | Truncated Maximum Likelihood fit and Robust Accelerated Failure Time regression for Gaussian and logWeibull case. |

robustbase | Basic Robust Statistics |

robustfa | An Object Oriented Framework for Robust Factor Analysis |

robustHD | Robust methods for high-dimensional data |

RobustRankAggreg | Methods for robust rank aggregation |

robustreg | Robust Regression Functions |

robustX | eXperimental eXtraneous eXtraordinary ... Functionality for Robust Statistics |

rocc | ROC based classification |

rockchalk | Regression Estimation and Presentation |

rococo | RObust rank COrrelation COefficient and test |

rocplus | ROC, Precision-Recall, Convex Hull and other plots. |

ROCR | Visualizing the performance of scoring classifiers. |

ROCwoGS | Non-parametric estimation of ROC curves without Gold Standard Test |

RODBC | ODBC Database Access |

RODM | R interface to Oracle Data Mining |

ROI | R Optimization Infrastructure |

ROI.plugin.glpk | ROI-plugin GLPK |

ROI.plugin.quadprog | ROI-plugin quadprog |

ROI.plugin.symphony | ROI-plugin symphony |

rolasized | Solarized colours in R |

Rook | Rook - a web server interface for R |

rootSolve | Nonlinear root finding, equilibrium and steady-state analysis of ordinary differential equations |

ROptEst | Optimally robust estimation |

ROptEstOld | Optimally robust estimation - old version |

ROptRegTS | Optimally robust estimation for regression-type models |

ror | Robust Ordinal Regression MCDA library |

roxygen | Literate Programming in R |

roxygen2 | In-source documentation for R |

Rpad | Workbook-style, web-based interface to R |

rpanel | Simple Interactive Controls for R Using the tcltk Package. |

rpart | Recursive Partitioning |

rpart.plot | Plot rpart models. An enhanced version of plot.rpart. |

rpartOrdinal | Ordinal classification tree functions |

rpartScore | Classification trees for ordinal responses |

RPCLR | RPCLR (Random-Penalized Conditional Logistic Regression) |

rpf | Response Probability Functions |

RpgSQL | DBI/RJDBC interface to PostgreSQL Database |

rphast | R interface to PHAST software for comparative genomics |

rplos | Interface to PLoS Journals API methods |

rplotengine | R as a plotting engine |

RPMG | Graphical User Interface (GUI) for interactive R analysis sessions |

RPMM | Recursively Partitioned Mixture Model |

rPorta | R/PORTA interface |

rportfolios | Random portfolio generation |

RPostgreSQL | R interface to the PostgreSQL database system |

rpsychi | Statistics for psychiatric research |

rpubchem | rpubchem - Interface to the PubChem Collection |

RPyGeo | ArcGIS Geoprocessing in R via Python |

RQDA | R-based Qualitative Data Analysis |

rqmcmb2 | Markov Chain Marginal Bootstrap for Quantile Regression |

Rquake | Seismic Hypocenter Determination |

RQuantLib | R interface to the QuantLib library |

Rramas | Matrix population models |

rrBLUP | Ridge regression and other kernels for genomic selection |

rrBlupMethod6 | Re-parametrization of RR-BLUP to allow for a fixed residual variance |

rrcov | Scalable Robust Estimators with High Breakdown Point |

rrcovHD | Robust multivariate Methods for High Dimensional Data |

rrcovNA | Scalable Robust Estimators with High Breakdown Point for Incomplete Data |

rrdf | rrdf - support for the Resource Description Framework |

rrdflibs | rrdflibs - package with Jena and Apache HTTP libraries for use with rrdf |

rredis | Redis client for R |

rreval | Remote R Evaluator (rreval) |

RRF | Regularized Random Forest |

rriskBayes | Predefined Bayes models fitted with Markov chain Monte Carlo (MCMC) (related to the 'rrisk' project) |

rriskDistributions | Collection of functions for fitting distributions (related to the 'rrisk' project) |

rrlda | Robust Regularized Linear Discriminant Analysis |

rrules | Generic rule engine for R |

rsae | Robust Small Area Estimation |

RSAGA | SAGA Geoprocessing and Terrain Analysis in R |

rscproxy | statconn: provides portable C-style interface to R (StatConnector) |

rsdepth | Ray Shooting Depth (i.e. RS Depth) functions for bivariate analysis |

RSearchYJ | RSearchYJ |

RSeed | borenstein analysis |

rseedcalc | Estimation of Proportion of GM Stacked Seeds in Seed Lots |

RSEIS | Seismic Time Series Analysis Tools |

rsem | Robust Structural Equation Modeling with Missing Data and Auxiliary Variables |

Rserve | Binary R server |

rSFA | Slow Feature Analysis in R |

rsgcc | Gini methodology-based correlation and clustering analysis of microarray and RNA-Seq gene expression data |

Rsge | Interface to the SGE Queuing System |

RSiena | Siena - Simulation Investigation for Empirical Network Analysis |

RSiteSearch | RSiteSearch |

RSKC | Robust sparse K-means |

rsm | Response-surface analysis |

RSNNS | Neural Networks in R using the Stuttgart Neural Network Simulator (SNNS) |

RSofia | Port of sofia-ml (http://code.google.com/p/sofia-ml/) to R |

Rsolnp | General Non-linear Optimization |

rsprng | R interface to SPRNG (Scalable Parallel Random Number Generators) |

RSQLite | SQLite interface for R |

RSQLite.extfuns | Math and String Extension Functions for RSQLite |

Rssa | A collection of methods for singular spectrum analysis |

rstiefel | Random orthonormal matrix generation on the Stiefel manifold |

rstream | Streams of random numbers |

Rsundials | Suite of Nonlinear Differential Algebraic Equations Solvers in R |

RSurvey | Analysis of Spatially Distributed Data |

Rsymphony | Symphony in R |

rSymPy | R interface to SymPy computer algebra system |

rtape | Manage and manipulate large collections of R objects stored as tape-like files |

RTAQ | RTAQ: Tools for the analysis of trades and quotes in R |

RTDAmeritrade | RTDAmeritrade |

RTextTools | Automatic Text Classification via Supervised Learning |

rtf | Rich Text Format (RTF) Output |

rtfbs | R Transcription Factor Binding Site identification tool |

RthroughExcelWorkbooksInstaller | Excel Workbooks supporting Statistics courses using 'R through Excel' |

rtiff | A tiff reader for R. |

RTisean | R interface to Tisean algorithms |

rTOFsPRO | Time-of-flight mass spectra signal processing |

RTOMO | Visualization for seismic tomography |

Rttf2pt1 | Package for ttf2pt1 program |

rugarch | Univariate GARCH models |

RUnit | R Unit test framework |

Runiversal | Runiversal - Package for converting R objects to Java variables and XML. |

runjags | Interface utilities for JAGS (using BUGS syntax) and Apple Xgrid distributed computing clusters |

Runuran | R interface to the UNU.RAN random variate generators |

RunuranGUI | A GUI for the UNU.RAN random variate generators |

rv | Simulation-based random variable object class in R |

RVAideMemoire | Diverse basic statistical and graphical functions |

Rvelslant | Downhole Seismic Analysis in R |

rvgtest | Tools for Analyzing Non-Uniform Pseudo-Random Variate Generators |

RVideoPoker | Play Video Poker with R |

rvmbinary | RVM-Classification and Regression |

Rvmmin | Variable metric nonlinear function minimization with bounds constraints |

RVtests | Rare Variant Tests Using Multiple Regression Methods |

Rwave | Time-Frequency analysis of 1-D signals |

RWeather | R wrapper around the Yahoo! Weather, Google Weather and NOAA APIs |

RWebMA | RWebMA |

RWeka | R/Weka interface |

RWekajars | R/Weka interface jars |

RWinEdt | R-WinEdt |

Rwinsteps | Running Winsteps in R |

rwm | R Workspace Management |

rworldmap | For mapping global data : rworldmap |

rwt | Rice Wavelet Toolbox wrapper |

RxCEcolInf | R x C Ecological Inference With Optional Incorporation of Survey Information |

RXKCD | Get XKCD comic from R |

RXMCDA | RXMCDA |

RXshrink | Maximum Likelihood Shrinkage via Generalized Ridge or Least Angle Regression |

Ryacas | R interface to the yacas computer algebra system |

rysgran | Grain size analysis, textural classifications and distribution of unconsolidated sediments |

Rz | GUI Tool for Data Management like SPSS or Stata |

s20x | Stats 20x |

s4vd | Biclustering via sparse singular value decomposition incorporating stability selection |

sabreR | Multivariate Generalized Linear Mixed Models |

sac | Semiparametric Analysis of Changepoint |

saemix | Stochastic Approximation Expectation Maximization (SAEM) algorithm |

SAFD | Statistical Analysis of Fuzzy Data |

safeBinaryRegression | Safe Binary Regression |

sampfling | Sampford sampling (w/o replacement and unequal probabilities) |

SamplerCompare | A framework for comparing the performance of MCMC samplers |

sampleSelection | Sample Selection Models |

samplesize | a collection of sample size functions |

SampleSizeMeans | Sample size calculations for normal means |

SampleSizeProportions | Calculating sample size requirements when estimating the difference between two binomial proportions |

sampling | Survey Sampling |

samplingbook | Survey Sampling Procedures |

SamplingStrata | Optimal stratification of sampling frames for multipurpose sampling surveys |

sampSurf | Sampling Surface Simulation for Areal Sampling Methods |

samr | SAM: Significance Analysis of Microarrays |

sandwich | Robust Covariance Matrix Estimators |

sapa | Spectral Analysis for Physical Applications |

SAPP | Statistical Analysis of Point Processes |

sas7bdat | SAS Database Reader (experimental) |

SAScii | Import ASCII files directly into R using only a SAS input script |

SASmixed | Data sets from "SAS System for Mixed Models" |

SASPECT | Significant AnalysiS of PEptide CounTs. |

SASxport | Read and Write SAS XPORT Files |

saves | Fast load variables |

saws | Small-Sample Adjustments for Wald tests Using Sandwich Estimators |

sBF | Smooth Backfitting |

sbgcop | Semiparametric Bayesian Gaussian copula estimation and imputation |

SBSA | Simplified Bayesian Sensitivity Analysis |

sca | Simple Component Analysis |

scagnostics | Compute scagnostics - scatterplot diagnostics |

scaleboot | Approximately Unbiased P-values via Multiscale Bootstrap |

scales | Scale functions for graphics. |

scam | Shape constrained additive models |

scape | Statistical Catch-at-Age Plotting Environment |

scapeMCMC | MCMC Diagnostic Plots |

scaRabee | Optimization Toolkit for Pharmacokinetic-Pharmacodynamic Models |

scatterplot3d | 3D Scatter Plot |

scio | Sparse Column-wise Inverse Operator |

sciplot | Scientific Graphing Functions for Factorial Designs |

SciViews | SciViews GUI API - Main package |

SCMA | Single-Case Meta-Analysis |

ScottKnott | The ScottKnott Clustering Algoritm |

scout | Implements the Scout method for Covariance-Regularized Regression |

SCperf | Supply Chain Perform |

scrapeR | Tools for Scraping Data from HTML and XML Documents |

scrime | Analysis of High-Dimensional Categorical Data such as SNP Data |

scriptests | Transcript-based unit tests that are easy to create and maintain |

SCRT | Single-Case Randomization Tests |

scuba | Scuba diving calculations and decompression models |

sculpt3d | A simple toolbar GUI for brushing RGL plots |

SCVA | Single-Case Visual Analysis |

sda | Shrinkage Discriminant Analysis and CAT Score Variable Selection |

SDaA | Sampling: Design and Analysis |

sdcMicro | Statistical Disclosure Control methods for the generation of public- and scientific-use files. |

sdcMicroGUI | Graphical user interface for package sdcMicro |

sdcTable | Methods for SDC (statistical disclosure control) in tabular data |

SDDA | Stepwise Diagonal Discriminant Analysis |

sddpack | Semidiscrete Decomposition |

sde | Simulation and Inference for Stochastic Differential Equations |

sdef | Synthesizing List of Differentially Expressed Features |

SDisc | Integrated methodology for the identification of homogeneous subtypes in data |

SDMTools | Species Distribution Modelling Tools: Tools for processing data associated with species distribution modelling exercises |

sdprisk | Measures of Risk for the Compound Poisson Risk Process with Diffusion |

sdtoolkit | Scenario Discovery Tools to Support Robust Decision Making |

SE.IGE | Standard errors of estimated genetic parametes |

seacarb | seawater carbonate chemistry with R |

SearchTrees | Spatial Search Trees |

season | Seasonal analysis of health data |

SECP | Statistical Estimation of Cluster Parameters (SECP) |

secr | Spatially explicit capture-recapture |

SEER2R | reading and writing SEER*STAT data files |

SEERaBomb | SEER Setup and Use with A-Bomb Data |

seewave | Time wave analysis and graphical representation |

seg | A set of tools for residential segregation research |

segmented | Segmented relationships in regression models with breakpoints/changepoints estimation |

Segmentor3IsBack | A Fast Segmentation Algorithm |

SEL | Semiparametric elicitation |

selectiongain | A tool for efficient calculation and optimization of the expected gain from multi-stage |

selectMeta | Estimation of weight functions in meta analysis |

SeleMix | Selective Editing via Mixture models |

sem | Structural Equation Models |

semdiag | Structural equation modeling diagnostics |

semGOF | Goodness-of-fit indexes for structural equation models |

SemiPar | Semiparametic Regression |

SemiParBIVProbit | Semiparametric Bivariate Probit Modelling |

SemiParSampleSel | Semiparametric Sample Selection Modelling with Continuous Response |

SEMModComp | Model Comparisons for SEM |

semPLS | Structural Equation Modeling Using Partial Least Squares |

semTools | Useful tools for structural equation modeling. |

sendmailR | send email using R |

sendplot | Tool for sending interactive plots with tool-tip content. |

sensitivity | Sensitivity Analysis |

sensitivityPStrat | Principal Stratification Sensitivity Analysis Functions |

SensoMineR | Sensory data analysis with R |

sensR | Thurstonian models for sensory discrimination |

SenSrivastava | Datasets from Sen & Srivastava |

sentiment | Tools for Sentiment Analysis |

separationplot | Separation Plots |

seqCBS | CN Profiling using Sequencing and CBS |

seqinr | Biological Sequences Retrieval and Analysis |

seqmon | Sequential Monitoring of Clinical Trials |

seqRFLP | Simulation and visualization of restriction enzyme cutting pattern from DNA sequences. |

seriation | Infrastructure for seriation |

session | Functions for interacting with, saving and restoring R sessions. |

sessionTools | Tools for saving, restoring and teleporting R sessions. |

setRNG | Set (Normal) Random Number Generator and Seed |

sets | Sets, Generalized Sets, Customizable Sets and Intervals |

sfa | Stochastic Frontier Analysis |

sfsmisc | Utilities from Seminar fuer Statistik ETH Zurich |

sft | Functions for Systems Factorial Technology Analysis of Data |

SGCS | Spatial Graph based Clustering Summaries for spatial point patterns |

sgeostat | An Object-oriented Framework for Geostatistical Modeling in S+ |

SGL | Fit a GLM (or cox model) with a combination of lasso and group lasso regularization |

SGP | An R Package for the Calculation and Visualization of Student Growth Percentiles & Percentile Growth Trajectories. |

SGPdata | Exemplar data sets for SGP analyses. |

shape | Functions for plotting graphical shapes, colors |

shapefiles | Read and Write ESRI Shapefiles |

shapes | Statistical shape analysis |

sharx | Models and Data Sets for the Study of Species-Area Relationships |

SHIP | SHrinkage covariance Incorporating Prior knowledge |

shotGroups | Analyze shot group data |

schoolmath | Functions and datasets for math used in school |

schwartz97 | A package on the Schwartz two-factor commodity model |

siar | Stable Isotope Analysis in R |

sideChannelAttack | Side Channel Attack |

sifds | Swedish inflation forecast data set |

sig | Print function signatures. |

sigclust | Statistical Significance of Clustering |

SightabilityModel | Wildlife Sightability Modeling |

signal | Signal processing |

signalextraction | Real-Time Signal Extraction (Direct Filter Approach) |

sigora | SIGNATURE OVERREPRESENTATION ANALYSIS |

SigWinR | SigWin-detector implementation in R |

SII | Calculate ANSI S3.5-1997 Speech Intelligibility Index |

Sim.DiffProc | Simulation of Diffusion Processes |

Sim.DiffProcGUI | Graphical User Interface for Simulation of Diffusion Processes |

simba | A Collection of functions for similarity analysis of vegetation data |

simboot | Simultaneous inference for diversity indices. |

simco | A package to import Structure files and deduce similarity coefficients from them |

SimComp | Simultaneous Comparisons for Multiple Endpoints |

simctest | Safe implementation of Monte Carlo tests. |

simecol | Simulation of ecological (and other) dynamic systems |

simex | SIMEX- and MCSIMEX-Algorithm for measurement error models |

simexaft | simexaft |

simFrame | Simulation framework |

SimHap | A comprehensive modeling framework for epidemiological outcomes and a simulation-based approach to haplotypic analysis of population-based data |

Simile | Interact with Simile models |

simone | Statistical Inference for MOdular NEtworks (SIMoNe) |

simpleboot | Simple Bootstrap Routines |

SimpleTable | Bayesian Inference and Sensitivity Analysis for Causal Effects from 2 x 2 and 2 x 2 x K Tables in the Presence of Unmeasured Confounding |

simPopulation | Simulation of synthetic populations for surveys based on sample data |

simsem | SIMulated Structural Equation Modeling. |

simSummary | Simulation summary |

SimultAnR | Correspondence and Simultaneous Analysis |

SIN | A SINful Approach to Selection of Gaussian Graphical Markov Models |

sinartra | A simple web app framework for R, based on sinatra. |

SIS | Sure Independence Screening |

sisus | SISUS: Stable Isotope Sourcing using Sampling |

sitools | Format a number to a string with SI prefix |

SixSigma | Six Sigma Tools for Quality and Process Improvement |

SiZer | SiZer: Significant Zero Crossings |

SKAT | SNP-set (Sequence) Kernel Association Test |

skellam | Skellam distribution |

SkewHyperbolic | The Skew Hyperbolic Student t-Distribution |

skewt | The Skewed Student-t Distribution |

skewtools | Information Tools for analyze Skew-Elliptical distributions and related models |

skmeans | Spherical k-Means Clustering |

slam | Sparse Lightweight Arrays and Matrices |

SLC | Slope and level change |

Sleuth2 | Data sets from Ramsey and Schafer's "Statistical Sleuth (2nd ed)" |

SlimPLS | SlimPLS multivariate feature selection |

sm | Smoothing methods for nonparametric regression and density estimation |

smacof | SMACOF for Multidimensional Scaling. |

smatr | (Standardised) Major Axis Estimation and Testing Routines |

SMC | Sequential Monte Carlo (SMC) Algorithm |

smco | A simple Monte Carlo optimizer using adaptive coordinate sampling |

SMCP | Smoothed minimax concave penalization (SMCP) method for genome-wide association studies. |

smcure | Fit Semiparametric Mixture Cure Models |

smcUtils | Utility functions for sequential Monte Carlo |

sme | Smoothing-splines Mixed-effects Models |

smfsb | SMfSB 2e: Stochastic Modelling for Systems Biology, second edition |

SMIR | Companion to Statistical Modelling in R |

smirnov | Provides two taxonomic coefficients from E. S. Smirnov "Taxonomic analysis" (1969) book |

smoothmest | Smoothed M-estimators for 1-dimensional location |

smoothSurv | Survival Regression with Smoothed Error Distribution |

smoothtail | Smooth Estimation of GPD Shape Parameter |

SMPracticals | Practicals for use with Davison (2003) Statistical Models |

SMVar | Structural Model for variances |

sn | The skew-normal and skew-t distributions |

sna | Tools for Social Network Analysis |

snort | Social Network-Analysis On Relational Tables |

snow | Simple Network of Workstations |

Snowball | Snowball Stemmers |

snowfall | Easier cluster computing (based on snow). |

snowFT | Fault Tolerant Simple Network of Workstations |

snp.plotter | snp.plotter |

SNPassoc | SNPs-based whole genome association studies |

SNPMaP | SNP Microarrays and Pooling in R |

SNPMaP.cdm | Annotation for SNP Microarrays and Pooling in R |

SNPmaxsel | Maximally selected statistics for SNP data |

SNPRelate | Parallel Computing Toolset for Genome-Wide Association Studies (GWAS) |

SNSequate | Standard and Nonstandard Statistical Models and Methods for Test Equating |

SOAR | Memory management in R by delayed assignments |

SoDA | Functions and Exampels for "Software for Data Analysis" |

softclassval | Soft classification performance measures |

soil.spec | Soil spectral data exploration and regression functions |

soilDB | Soil Database Interface |

SoilR | Models of Soil Organic Matter Decomposition |

soiltexture | Functions for soil texture plot, classification and transformation |

solaR | Solar Photovoltaic Systems |

som | Self-Organizing Map |

soma | General-purpose optimisation with the Self-Organising Migrating Algorithm |

someKfwer | Controlling the Generalized Familywise Error Rate |

someMTP | Some Multiple Testing Procedures |

somplot | Visualisation of hexagonal Kohonen maps |

soobench | Single Objective Optimization Benchmark Functions |

SortableHTMLTables | Turns a data frame into an HTML file containing a sortable table. |

sos | sos |

sos4R | An R client for the OGC Sensor Observation Service |

sound | A Sound Interface for R |

sp | classes and methods for spatial data |

spa | Implements The Sequential Predictions Algorithm |

SPA3G | SPA3G: R package for the method of Li and Cui (2012) |

spaa | SPecies Association Analysis |

space | Sparse PArtial Correlation Estimation |

SPACECAP | A Program to Estimate Animal Abundance and Density using Bayesian Spatially-Explicit Capture-Recapture Models |

spaceExt | Extension of SPACE |

spacetime | classes and methods for spatio-temporal data |

spacodiR | Spatial and Phylogenetic Analysis of Community Diversity |

spacom | Spatially weighted context data for multilevel modelling |

spam | SPArse Matrix |

sparcl | Perform sparse hierarchical clustering and sparse k-means clustering |

sparkTable | Sparklines and graphical tables for tex and html |

SPARQL | SPARQL client |

sparr | The sparr package: SPAtial Relative Risk |

SparseGrid | Sparse grid integration in R |

sparseLDA | Sparse Discriminant Analysis |

sparseLTSEigen | RcppEigen back end for sparse least trimmed squares regression |

SparseM | Sparse Linear Algebra |

sparsenet | Fit sparse linear regression models via nonconvex optimization |

spartan | Spartan (Simulation Parameter Analysis R Toolkit ApplicatioN) |

spatcounts | Spatial count regression |

spatgraphs | Graphs for spatial point patterns |

spatial | Functions for Kriging and Point Pattern Analysis |

spatialCovariance | Computation of spatial covariance matrices for data on rectangles |

SpatialEpi | Performs various spatial epidemiological analyses |

SpatialExtremes | Modelling Spatial Extremes |

spatialkernel | Nonparameteric estimation of spatial segregation in a multivariate point process |

SpatialNP | Multivariate nonparametric methods based on spatial signs and ranks |

SpatialPack | Package for analysis of spatial data |

spatialprobit | Spatial Probit Models |

spatialsegregation | Segregation measures for multitype spatial point patterns |

SpatialTools | SpatialTools |

SpatialVx | Spatial Forecast Verification |

SpatioTemporal | Spatio-Temporal Model Estimation |

spatstat | Spatial Point Pattern analysis, model-fitting, simulation, tests |

spBayes | Univariate and Multivariate Spatial Modeling |

spc | Statistical Process Control |

spcadjust | Functions for calibrating control charts |

spclust | Selective phenotyping for experimental crosses |

spcosa | Spatial Coverage Sampling and Random Sampling from Compact Geographical Strata |

spcov | Sparse Estimation of a Covariance Matrix |

spd | Semi Parametric Distribution |

spdep | Spatial dependence: weighting schemes, statistics and models |

spe | Stochastic Proximity Embedding |

SPECIES | Statistical package for species richness estimation |

SpeciesMix | Fit Mixtures of Archetype species |

SpectralGEM | Discovering Genetic Ancestry Using Spectral Graph Theory |

spectralGP | Approximate Gaussian processes using the Fourier basis |

speedglm | Fitting Linear and Generalized Linear Models to large data sets. |

speedR | A GUI based importing and filtering tool |

speedRlibs | Package containing the required libraries (jars) for speedR |

speedRlibTF | speedR's table filter library |

spef | Semiparametric estimating functions. |

speff2trial | Semiparametric efficient estimation for a two-sample treatment effect |

SPEI | Calculation of the Standardised Precipitation-Evapotranspiration Index |

sperich | Auxiliary functions to estimate centers of biodiversity |

sperrorest | Spatial Error Estimation and Variable Importance |

spgrass6 | Interface between GRASS 6+ geographical information system and R |

spgwr | Geographically weighted regression |

sphereplot | Spherical plotting |

SpherWave | Spherical Wavelets and SW-based Spatially Adaptive Methods |

sphet | Spatial Models with heteroskedastic innovations |

spi | Compute SPI index |

SPIAssay | A genetic-based assay for the identification of cell lines |

spider | Species Identity and Evolution in R |

spikeslab | Prediction and variable selection using spike and slab regression |

spikeSlabGAM | Bayesian variable selection and model choice for generalized additive mixed models |

SPIn | Optimal Shortest Probability Intervals |

splancs | Spatial and Space-Time Point Pattern Analysis |

splines | Regression Spline Functions and Classes |

splinesurv | Nonparametric bayesian survival analysis |

splm | Econometric Models for Spatial Panel Data |

spls | Sparse Partial Least Squares (SPLS) Regression and Classification |

splus2R | Supplemental S-PLUS functionality in R |

spMC | Continuous Lag Spatial Markov Chains |

sporm | Semiparametric proportional odds rate model |

SportsAnalytics | Infrastructure for Sports Analytics |

SPOT | Sequential Parameter Optimization |

SPSL | Site Percolation on Square Lattice (SPSL) |

spsmooth | An Extension Package for 'mgcv'. |

spssDDI | Read SPSS System files and produce valid DDI Version 3.0 documents |

spsurvey | Spatial Survey Design and Analysis |

spt | Sierpinski Pedal Triangle |

spTimer | Spatio-Temporal Bayesian Modelling Using R |

spuRs | Functions and Datasets for "Introduction to Scientific Programming and Simulation Using R". |

sqldf | Perform SQL Selects on R Data Frames |

SQLiteMap | Wrapper to spatialite functions |

SQN | subset quantile normalization |

SQUAREM | Squared extrapolation methods for accelerating fixed-point iterations |

squash | Color-based plots for multivariate visualization |

sra | Selection Response Analysis |

SRMA | SRMA Analysis of Array-based Sequencing Data |

sROC | Nonparametric Smooth ROC Curves for Continuous Data |

SRPM | Shared Reproducibility Package Management |

ssanv | Sample Size Adjusted for Nonadherence or Variability of input parameters |

ssize.fdr | Sample Size Calculations for Microarray Experiments |

sspir | State Space Models in R |

sspline | Smoothing Splines on the Sphere |

sss | Tools for importing files in the triple-s .(Standard Survey Structure) format |

SSsimple | State space models |

st | Shrinkage t Statistic and CAT Score |

stab | data analysis of drug stability for shelf life estimation |

stabledist | Stable Distribution Functions |

stam | Spatio-Temporal Analysis and Modelling |

standGL | Standardized Group Lasso |

STAR | Spike Train Analysis with R |

startupmsg | Utilities for start-up messages |

stashR | A Set of Tools for Administering SHared Repositories |

StatDA | Statistical Analysis for Environmental Data |

StatDataML | implementation of the StatDataML proposal |

StateTrace | Bayesian Ordinal Analysis for State Trace Designs |

StatFingerprints | StatFingerprints |

StatMatch | Statistical Matching |

statmod | Statistical Modeling |

statnet | Software tools for the Statistical Analysis of Network Data |

stats | The R Stats Package |

stats4 | Statistical Functions using S4 Classes |

steepness | Testing Steepness of Dominance Hierarchies |

SteinerNet | Steiner approach for Biological Pathway Graph Analysis |

stellaR | stellar evolution tracks and isochrones |

Stem | Spatio-temporal models in R |

stepp | Subpopulation Treatment Effect Pattern Plot (STEPP) |

stepPlr | L2 penalized logistic regression with a stepwise variable selection |

stepwise | Stepwise detection of recombination breakpoints |

stinepack | Stineman, a consistently well behaved method of interpolation |

StMoSim | Simulate QQ-Norm-Plot |

stockPortfolio | Build stock models and analyze stock portfolios. |

StochaTR | Solving stochastic linear programs with a single risk constraint |

stochmod | Stochastic Modeling |

stoichcalc | R Functions for Solving Stoichiometric Equations |

stpp | Space-Time Point Pattern simulation, visualisation and analysis |

stratasphere | Stratified Spherical Approximate Conditional Modeling |

stratification | Univariate Stratification of Survey Populations |

stratigraph | Toolkit for the plotting and analysis of stratigraphic and palaeontological data |

stream.net | Building and analyzing binary stream networks |

StreamMetabolism | Stream Metabolism-A package for calculating single station metabolism from diurnal Oxygen curves |

stremo | Functions to help the process of learning structural equation modelling |

StressStrength | Computation and estimation of reliability of stress-strength models |

stringr | Make it easier to work with strings. |

strucchange | Testing, Monitoring, and Dating Structural Changes |

StructR | Structural geology tools |

subplex | Subplex optimization algorithm |

subselect | Selecting variable subsets |

sudoku | Sudoku Puzzle Generator and Solver |

sudokuplus | Sudoku Puzzle (9*9 12*12 16*16) Generator and Solver |

sugaR | Plots to help optimising diabetes therapy |

SunterSampling | Sunter's sampling design |

supclust | Supervised Clustering of Predictor Variables such as Genes |

superdiag | R Code for Testing Markov Chain Nonconvergence |

SuperLearner | Super Learner Prediction |

superMDS | Implements the supervised multidimensional scaling (superMDS) proposal of Witten and Tibshirani (2011) |

superpc | Supervised principal components |

SuppDists | Supplementary distributions |

support.CEs | Basic functions for supporting an implementation of choice experiments |

surv2sample | Two-Sample Tests for Survival Analysis |

survAUC | Estimators of prediction accuracy for time-to-event data. |

survBayes | Fits a proportional hazards model to time to event data by a Bayesian approach |

survC1 | C-statistics for risk prediction models with censored survival data |

surveillance | Temporal and Spatio-Temporal Modeling and Monitoring of Epidemic Phenomena |

survey | analysis of complex survey samples |

Survgini | The Gini concentration test for survival data |

survIDINRI | IDI and NRI for comparing competing risk prediction models with censored survival data |

survival | Survival analysis, including penalised likelihood. |

survivalBIV | Estimation of the bivariate distribution function |

survivalROC | Time-dependent ROC curve estimation from censored survival data |

survJamda | Survival prediction by joint analysis of microarray gene expression data |

survJamda.data | survJamda.data |

survPresmooth | Presmoothed Estimation in Survival Analysis |

survrec | Survival analysis for recurrent event data |

survSNP | Power and Sample Size Calculations for SNP Association Studies with Censored Time to Event Outcomes |

svcm | 2d and 3d Space-Varying Coefficient Models |

svd | Interfaces to various state-of-art SVD and eigensolvers |

svDialogs | SciViews GUI API - Dialog boxes |

SVGMapping | Map experimental data on custom-made SVG file |

svGUI | SciViews GUI API - Functions to manage GUIs |

svHttp | SciViews GUI API - R HTTP server |

svIDE | SciViews GUI API - IDE and code editor functions |

svKomodo | SciViews GUI API - Functions to interface with Komodo Edit/IDE |

svMisc | SciViews GUI API - Miscellaneous functions |

SVMMaj | SVMMaj algorithm |

svmpath | svmpath: the SVM Path algorithm |

svSocket | SciViews GUI API - R Socket Server |

svSweave | SciViews GUI API - Sweave functions |

svTools | SciViews GUI API - Tools (wrapper for packages tools and codetools) |

svUnit | SciViews GUI API - Unit testing |

svWidgets | SciViews GUI API - Widgets & Windows |

swamp | Analysis and visualization of high-dimensional data in respect to sample annotations. |

SWATmodel | A multi-OS implementation of the TAMU SWAT model. |

SweaveListingUtils | Utilities for Sweave together with TeX listings package |

SwissAir | Air Quality Data of Switzerland for one year in 30 min Resolution |

SWordInstaller | SWord: Use R in Microsoft Word (Installer) |

sybil | SyBiL - Efficient constrained based modelling in R |

sybilDynFBA | Dynamic FBA : dynamic flux balance analysis |

sybilSBML | SBML integration in SyBiL |

symbols | Symbol plots |

symmoments | Symbolic Central Moments of the Multivariate Normal Distribution |

synbreed | Framework for the analysis of genomic prediction data using R |

synbreedData | Data for the synbreed package |

SYNCSA | SYNCSA - Analysis of functional and phylogenetic patterns in metacommunities. |

SynergizeR | Interface to The Synergizer service for translating between sets of biological identifiers. |

SyNet | Inference and Analysis of Sympatry Networks |

Synth | Synthetic Control Group Method for Comparative Case Studies |

systemfit | Estimating Systems of Simultaneous Equations |

tableplot | Represents tables as semi-graphic displays |

tables | Formula-driven table generation |

tabplot | Tableplot, a visualization of large datasets |

tabplotGTK | A graphical user interface for the tabplot package |

tabuSearch | R based tabu search algorithm |

TAHMMAnnot | Mixture model approach to compare two samples of Tiling Array data |

TANOVA | Time Course Analysis of Variance for Microarray |

taRifx | Collection of utility and convenience functions. |

taRifx.geo | Collection of various spatial functions |

tau | Text Analysis Utilities |

TauP.R | Earthquake Traveltime Calculations for 1-D Earth Models |

tawny | Provides various portfolio optimization strategies including random matrix theory and shrinkage estimators |

tawny.types | Common types for tawny |

Taxonstand | Taxonomic standardization of plant species names |

TBSSurvival | TBS Model R package |

TCC | TCC: tag count comparison package |

tcltk | Tcl/Tk Interface |

tcltk2 | Tcl/Tk Additions |

tclust | Robust Trimmed Clustering |

tdm | A Tool for Therapeutic Drug Monitoring (TDM) |

TDMR | Tuned Data Mining in R |

tdthap | TDT tests for extended haplotypes |

TeachingDemos | Demonstrations for teaching and learning |

TeachingSampling | Sampling designs and parameter estimation in finite population |

teigen | teigen: Model-based clustering and classification with the multivariate t-distribution |

tempdisagg | Methods for Temporal Disaggregation and Interpolation of Time Series |

tensor | Tensor product of arrays |

tensorA | Advanced tensors arithmetic with named indices |

TEQR | Target Equavelence Range Design |

TERAplusB | Test for A+B Traditional Escalation Rule |

termstrc | Zero-coupon Yield Curve Estimation |

ternvis | Visualisation, verification and calibration of ternary probabilistic forecasts |

TestSurvRec | Statistical tests to compare two survival curves with recurrent events |

testthat | Testthat code. Tools to make testing fun :) |

texmex | Threshold exceedences and multivariate extremes |

TExPosition | Two-table ExPosition |

texreg | Conversion of R regression output to LaTeX tables. |

textcat | N-Gram Based Text Categorization |

textir | Inverse Regression for Text Analysis |

TextRegression | Predict continuous valued outputs associated with text documents. |

tfer | Forensic Glass Transfer Probabilities |

tfplot | Time Frame User Utilities |

tframe | Time Frame coding kernel |

tframePlus | Time Frame coding kernel extensions |

tgp | Bayesian treed Gaussian process models |

tgram | Functions to compute and plot tracheidograms |

TGUICore | Teaching GUI - Core functionality |

TGUITeaching | Teaching GUI - prototype |

thgenetics | Genetic Rare Variants Tests |

ThreeGroups | ML Estimator for Baseline-Placebo-Treatment (Three-group) designs |

ThreeWay | Three-way component analysis |

ThresholdROC | Optimum threshold estimation based on cost function in a two and three state setting |

tiff | Read and write TIFF images |

tiger | TIme series of Grouped ERrors |

tileHMM | Hidden Markov Models for ChIP-on-Chip Analysis |

TilePlot | Characterization of functional genes in complex microbial communities using tiling DNA microarrays |

tilting | Variable selection via Tilted Correlation Screening algorithm |

timeDate | Rmetrics - Chronological and Calendarical Objects |

timeordered | Time-ordered and time-aggregated network analyses |

timereg | timereg package for Flexible regression models for survival data. |

timeSeries | Rmetrics - Financial Time Series Objects |

timetools | provides objects and tools to manipulate irregular unhomogeneous time data and subtime data. |

TimeWarp | Date calculations and manipulation |

TIMP | a problem solving environment for fitting separable nonlinear models in physics and chemistry applications |

timsac | TIMe Series Analysis and Control package |

Tinflex | Tinflex - Universal non-uniform random number generator |

TinnR | Resources of Tinn-R GUI/Editor for R Environment |

tis | Time Indexes and Time Indexed Series |

titan | Titration analysis for mass spectrometry data |

tkrgl | TK widget tools for rgl package |

tkrplot | TK Rplot |

tlemix | Trimmed Maximum Likelihood Estimation |

tlmec | Linear Student-t Mixed-Effects Models with Censored Data |

tlnise | Two-level normal independent sampling estimation |

tm | Text Mining Package |

tm.plugin.dc | Text Mining Distributed Corpus Plug-In |

tm.plugin.factiva | Import articles from Factiva using the tm text mining framework |

tm.plugin.mail | Text Mining E-Mail Plug-In |

tmle | Targeted Maximum Likelihood Estimation |

tmvtnorm | Truncated Multivariate Normal and Student t Distribution |

tnet | tnet: Software for Analysis of Weighted, Two-mode, and Longitudinal networks |

tolerance | Functions for calculating tolerance intervals |

tonymisc | Functions for Econometrics Output |

tools | Tools for Package Development |

topicmodels | Topic models |

topmodel | Implementation of the hydrological model TOPMODEL in R |

topologyGSA | topologyGSA |

tourr | Implement tour methods in pure R code |

tourrGui | A Tour GUI using gWidgets |

ToxLim | Incorporating Ecological Data and Associated Uncertainty in Bioaccumulation Modeling |

TPAM | TPAM |

tpe | Tree preserving embedding |

TPmsm | Estimation of transitions probabilities in multistate models |

tpr | Temporal Process Regression |

track | Track Objects |

trackObjs | Track Objects |

tractor.base | A package for reading, manipulating and visualising magnetic resonance images |

TradeStrategyAnalyzer | Trade Strategy Analyzer |

traitr | An interface for creating GUIs modeled in part after traits UI module for python. |

TraMineR | Trajectory miner: a toolbox for exploring and rendering sequence data |

TRAMPR | TRFLP Analysis and Matching Package for R |

trapezoid | The Trapezoidal Distribution |

tree | Classification and regression trees |

treebase | An R package for discovery, access and manipulation of online phylogenies |

treecm | Centre of mass assessment and consolidation of trees. |

treelet | Treelets - an adaptive multi-scale basis for high-dimensional, sparse and unordered data |

treemap | Treemap visualization |

TreePar | Estimating birth and death rates based on phylogenies |

TreeSim | Simulating trees under the birth-death model |

treethresh | Methods for Tree-based Local Adaptive Thresholding |

trex | Truncated exact test for two-stage case-control design for studying rare genetic variants |

TrialSize | R functions in Chapter 3,4,6,7,9,10,11,12,14,15 |

TRIANG | Symmetric discrete triangular distributions |

TRIANGG | General discrete triangular distribution |

triangle | Provides the standard distribution functions for the triangle distribution |

trifield | Some basic facilities for ternary fields and plots |

trimcluster | Cluster analysis with trimming |

trio | trio package without Fortran code |

trip | Spatial analysis of animal track data |

tripack | Triangulation of irregularly spaced data |

tripEstimation | Metropolis sampler and supporting functions for estimating animal movement from archival tags and satellite fixes |

TripleR | Social Relation Model (SRM) analyses for single or multiple round-robin groups |

truncdist | Truncated Random Variables |

truncnorm | Truncated normal distribution |

truncreg | Truncated Regression Models |

truncSP | Semi-parametric estimators of truncated regression models |

trust | Trust Region Optimization |

TSA | Time Series Analysis |

TSAgg | Time series Aggregation |

TSdbi | Time Series Database Interface |

tsDyn | Nonlinear time series models with regime switching |

TSEN | Two-dimensional peak sentinel tool for GC x GC-HRTOFMS |

tseries | Time series analysis and computational finance |

tseriesChaos | Analysis of nonlinear time series |

tsfa | Time Series Factor Analysis |

TSfame | Time Series Database Interface extensions for fame |

TSgetSymbol | Time Series Database Interface extension to connect with getSymbols |

TShistQuote | Time Series Database Interface extensions for get.hist.quote |

TSHRC | Two Stage Hazard Rate Comparison |

tslars | Least angle regression for time series analysis |

tsModel | Time Series Modeling for Air Pollution and Health |

TSMySQL | Time Series Database Interface extensions for MySQL |

tsne | T-distributed Stochastic Neighbor Embedding for R (t-SNE) |

TSodbc | Time Series Database Interface extensions for ODBC |

TSP | Traveling Salesperson Problem (TSP) |

TSPC | Prediction using time-course gene expression |

Tsphere | Transposable Sphering for Large-Scale Inference with Correlated Data. |

TSPostgreSQL | Time Series Database Interface extensions for PostgreSQL |

TSSQLite | Time Series Database Interface extentions for SQLite |

TSxls | Time Series Database Interface extension to connect to spreadsheets |

TSzip | Time Series Database Interface extension to connect to zip files |

TTAinterfaceTrendAnalysis | Temporal Trend Analysis Graphical Interface |

ttime | Translate Neurodevelopmental Event Timing Across Species |

TTR | Technical Trading Rules |

ttrTests | Standard Backtests for Technical Trading Rules in Financial Data |

ttutils | Utility functions |

TukeyC | Convencional Tukey Test |

TunePareto | Multi-objective parameter tuning for classifiers |

tuneR | Analysis of music and speech |

turboEM | A Suite of Convergence Acceleration Schemes for EM and MM algorithms |

TUWmodel | Lumped hydrological model developed at the Vienna University of Technology for education purposes. |

twang | Toolkit for Weighting and Analysis of Nonequivalent Groups |

tweedie | Tweedie exponential family models |

twiddler | Interactive manipulation of R expressions |

R based Twitter client | |

TWIX | Trees WIth eXtra splits |

two.stage.boot | Two-stage cluster sample bootstrap algorithm |

TwoStepCLogit | Conditional logistic regression: A two-step estimation method |

twslm | A two-way semilinear model for normalization and analysis of cDNA microarray data. |

txtplot | Text based plots |

ucminf | General-purpose unconstrained non-linear optimization |

udunits2 | udunits-2 bindings for R |

ump | Uniformly Most Powerful Tests |

unbalhaar | Function estimation via Unbalanced Haar wavelets |

uncompress | Uncompress |

Unicode | Unicode data and utilities |

uniCox | Univarate shrinkage prediction in the Cox model |

unknownR | You didn't know you didn't know? |

unmarked | Models for Data from Unmarked Animals |

untb | ecological drift under the UNTB |

urca | Unit root and cointegration tests for time series data |

UScensus2000 | US Census 2000 Suite of R Packages |

UScensus2000add | US Census 2000 Suite of R Packages: Demographic Add |

UScensus2000blkgrp | US Census 2000 Block Group Shapefiles and Additional Demographic Data |

UScensus2000cdp | US Census 2000 Designated Places Shapefiles and Additional Demographic Data |

UScensus2000tract | US Census 2000 Tract Level Shapefiles and Additional Demographic Data |

UScensus2010 | US Census 2010 Suite of R Packages |

useful | A collection of handy, useful functions |

UsingR | Data sets for the text "Using R for Introductory Statistics" |

USPS | Unsupervised and Supervised methods of Propensity Score Adjustment for Bias |

utils | The R Utils Package |

vacem | Vaccination Activities Coverage Estimation Model |

validator | External and Internal Validation Indices |

varbvs | Variational inference for Bayesian variable selection |

varcompci | VARCOMPCI: A Package for Computation of Confidence Intervals for Variance Components of Mixed Models in R. |

vardiag | A package for variogram diagnostics |

VarEff | Variation of effective population size |

VariABEL | Testing of genotypic variance heterogeneity to detect potentially interacting SNP. |

VarianceGamma | The Variance Gamma Distribution |

vars | VAR Modelling |

varSelectIP | Objective Bayes Model Selection |

varSelRF | Variable selection using random forests |

VarSwapPrice | Pricing a variance swap on an equity index |

VBLPCM | Variational Bayes Latent Position Cluster Model for networks. |

VBMA4hmm | The VBMA4hmm (Variational Bayesian Markov Model for hidden markov model) package |

vcd | Visualizing Categorical Data |

vcdExtra | vcd additions |

Vdgraph | This package creates variance dispersion graphs for response surface designs |

vec2dtransf | 2D Cartesian Coordinate Transformation |

VecStatGraphs2D | Vector analysis using graphical and analytical methods in 2D |

VecStatGraphs3D | Vector analysis using graphical and analytical methods in 3D |

vegan | Community Ecology Package |

vegclust | Fuzzy clustering of vegetation data |

vegdata | Functions to access vegetation databases (Turboveg) and prepare vegetation data for analysis |

vegetarian | Jost Diversity Measures for Community Data |

VennDiagram | Generate high-resolution Venn and Euler plots |

venneuler | Venn and Euler Diagrams |

verification | Forecast verification utilities. |

VGAM | Vector Generalized Linear and Additive Models |

VHDClassification | Discrimination/Classification in very high dimension with linear and quadratic rules. |

VIF | VIF Regression: A Fast Regression Algorithm For Large Data |

VIM | Visualization and Imputation of Missing Values |

vimcom | Intermediate the communication between Vim and R |

VineCopula | Statistical inference of vine copulas |

vines | Multivariate Dependence Modeling with Vines |

violinmplot | Combination of violin plot with mean and standard deviation. |

vioplot | Violin plot |

viopoints | 1-D Scatter Plots with Jitter Using Kernel Density Estimates |

VisCov | Visualizing of distributions of covariance matrices |

visreg | Visualization of regression functions |

visualFields | Statistical methods for visual fields |

visualizationTools | Package contains a few functions to visualize statistical circumstances. |

VizCompX | Visualisation of Computer Models |

VLMC | VLMC -- Variable Length Markov Chains |

vmv | Visualization of Missing Values |

voronoi | Methods and applications related to Voronoi tessellations |

Voss | Generic Voss algorithm (random sequential additions) |

vowels | Vowel Manipulation, Normalization, and Plotting |

VPdtw | Variable Penalty Dynamic Time Warping |

vrmlgen | Generate 3D visualizations for data exploration on the web |

vrtest | Variance Ratio tests and other tests for Martigale Difference Hypothesis |

vwr | Useful functions for visual word recognition research |

waffect | A package to simulate constrained phenotypes under a disease model H1 |

walkscoreAPI | Walk Score and Transit Score API |

wasim | Visualisation and analysis of output files of the hydrological model WASIM |

waterfall | Waterfall Charts in R |

waveband | Computes credible intervals for Bayesian wavelet shrinkage |

WaveCD | Wavelet change point detection for array CGH data |

waveclock | Time-frequency analysis of cycling cell luminescence data |

waved | Wavelet Deconvolution |

WaveletCo | Wavelet Coherence Analysis |

wavelets | A package of funtions for computing wavelet filters, wavelet transforms and multiresolution analyses |

wavemulcor | Wavelet routine for multiple correlation |

waveslim | Basic wavelet routines for one-, two- and three-dimensional signal processing |

wavethresh | Wavelets statistics and transforms. |

wccsom | SOM networks for comparing patterns with peak shifts |

WCQ | WCQ: QTL Mapping with Small Sample Size |

WDI | World Development Indicators (World Bank) |

weathermetrics | Functions to convert between weather metrics |

websockets | HTML 5 Websocket Interface for R |

webvis | Create graphics for the web from R. |

weightedKmeans | Weighted KMeans Clustering |

WeightedPortTest | Weighted Portmanteau Tests for Time Series Goodness-of-fit |

weightedScores | Weighted scores method for regression with dependent data |

weights | Weighting and Weighted Statistics |

weirs | A Hydraulics Package to Compute Open-Channel Flow over Weirs |

wfe | Weighted Linear Fixed Effects Estimators for Causal Inference |

wgaim | Whole Genome Average Interval Mapping for QTL detection using mixed models |

WGCNA | Weighted Correlation Network Analysis |

WhatIf | WhatIf: Software for Evaluating Counterfactuals |

whisker | {{mustache}} for R, logicless templating |

wikibooks | Functions and datasets of the german WikiBook "GNU R" |

WilcoxCV | Wilcoxon-based variable selection in cross-validation |

wild1 | R Tools for Wildlife Research and Management |

wle | Weighted Likelihood Estimation |

WMBrukerParser | William and Mary Parser For Bruker-Ultraflex Mass Spec Data |

WMCapacity | GUI implementing Bayesian working memory models |

WMDB | Discriminant Analysis Methods by Weight Mahalanobis Distance and bayes |

WMTregions | Exact Calculation of WMTR |

wmtsa | Wavelet Methods for Time Series Analysis |

wnominate | WNOMINATE Roll Call Analysis Software. |

wombsoft | Wombling Computation |

wordcloud | Word Clouds |

wordnet | WordNet Interface |

wq | Exploring water quality monitoring data |

write.snns | Function for exporting data to SNNS pattern files. |

WriteXLS | Cross-platform Perl based R function to create Excel 2003 (XLS) files |

wSVM | Weighted SVM with boosting algorithm for improving accuracy |

wvioplot | Weighted violin plot |

WWGbook | Functions and datasets for WWGbook. |

x12 | X12 - wrapper function and structure for batch processing |

x12GUI | X12 - Graphical User Interface |

xgrid | Access Apple Xgrid using R |

XLConnect | Excel Connector for R |

XLConnectJars | JAR dependencies for the XLConnect package |

xlsReadWrite | Read and write Excel files (.xls) |

xlsx | Read, write, format Excel 2007 and Excel 97/2000/XP/2003 files |

xlsxjars | Package required jars for the xlsx package |

xpose4 | Xpose 4 |

xpose4classic | Xpose 4 Classic Menu System |

xpose4data | Xpose 4 Data Functions Package |

xpose4generic | Xpose 4 Generic Functions Package |

xpose4specific | Xpose 4 Specific Functions Package |

xtable | Export tables to LaTeX or HTML |

xtermStyle | Basic text formatting using xterm escape sequences |

xts | eXtensible Time Series |

yacca | Yet Another Canonical Correlation Analysis Package |

yaImpute | yaImpute: An R Package for k-NN Imputation |

YaleToolkit | Data exploration tools from Yale University. |

yaml | Methods to convert R data to YAML and back |

yhat | Interpreting Regression Effects |

YieldCurve | Modelling and estimation of the yield curve |

YjdnJlp | Text Analysis by Yahoo! Japan Develper Network |

YourCast | Forecasting age-sex-country-cause mortality rates |

Zelig | Everyone's Statistical Software |

zendeskR | Zendesk API Wrapper |

zic | Bayesian Inference for Zero-Inflated Count Models |

zipcode | U.S. ZIP Code database for geocoding |

zipfR | Statistical models for word frequency distributions |

zoeppritz | Zoeppritz Equations |

zoo | S3 Infrastructure for Regular and Irregular Time Series (Z's ordered observations) |

zyp | Zhang + Yue-Pilon trends package |