# Installation of Packages

Please type `help(INSTALL)` or `help(install.packages)` in R for information on how to install packages from this directory. The manual R Installation and Administration
(also contained in the R base sources) explains the process in detail.

CRAN Task Views allow you to browse packages by topic and provide tools to automatically install all packages for special areas of interest.

### Daily Package Check Results

All packages are tested daily on a machine running Debian GNU/Linux. The results of `R CMD check` for the current release version of R, the patched and development version are summarized
in the check summary (some timings are also available).

Packages are also tested daily on MacOS X. The results of `R CMD check` for the current development version of R are summarized in the MacOS X check summary.

Packages are also checked under Windows, but only at the day a package appears on CRAN. The results of `Rcmd check` for the current release version, and the development version of R are
summarized in the Windows check summary.

### Writing Your Own Packages

aaMI | Mutual information for protein sequence alignments |

abind | Combine multi-dimensional arrays |

accuracy | Tools for testing and improving accuracy of statistical results. |

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

actuar | Actuarial functions |

adapt | adapt -- multidimensional numerical integration |

ade4 | Analysis of Environmental Data : Exploratory and Euclidean method |

adehabitat | Analysis of habitat selection by animals |

adlift | An adaptive lifting scheme algorithm |

agce | analysis of growth curve experiments |

akima | Interpolation of irregularly spaced data |

AlgDesign | AlgDesign |

alr3 | Methods and data to accompany Applied Linear Regression 3rd editi |

amap | Another Multidimensional Analysis Package |

AMORE | A MORE flexible neural network package |

AnalyzeFMRI | Functions for analysis of fMRI datasets stored in the ANALYZE for |

aod | Analysis of Overdispersed Data |

ape | Analyses of Phylogenetics and Evolution |

aplpack | Another Plot PACKage: stem.leaf, bagplot, faces, spin3R, ... |

apTreeshape | Analyses of Phylogenetic Treeshape |

ArDec | Time series autoregressive decomposition |

arules | Mining Association Rules and Frequent Itemsets |

ash | David Scott's ASH routines |

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

aster | Aster Models |

asypow | Calculate Power Utilizing Asymptotic Likelihood Ratio Methods |

aws | Adaptive Weights Smoothing |

BACCO | Bundle of emulator, calibrator, approximator |

bayesm | Bayesian Inference for Marketing/Micro-econometrics |

bayesmix | Bayesian Mixture Models with JAGS |

bayesSurv | Bayesian Survival Regression with Flexible Error and Random Effec |

BayesTree | Bayesian Methods for Tree Based Models |

BayesValidate | BayesValidate Package |

betareg | Beta Regression. |

Bhat | General likelihood exploration |

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

bicreduc | Reduction algorithm for the NPMLE for the distribution function o |

bim | Bayesian Interval Mapping Diagnostics |

bindata | Generation of Artificial Binary Data |

Biodem | Biodemography functions |

biopara | Self-contained parallel system for R |

bitops | Functions for Bitwise operations |

bivpois | Bivariate Poisson Models Using The EM Algorithm |

blighty | United Kingdom coastlines |

blockrand | Randomization for block random clinical trials |

BMA | Bayesian Model Averaging |

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

Bolstad | Bolstad functions |

boolean | Boolean logit and probit |

boost | Boosting Methods for Real and Simulated Data |

boot | Bootstrap R (S-Plus) Functions (Canty) |

bootstrap | Functions for the Book "An Introduction to the Bootstrap" |

bqtl | Bayesian QTL mapping toolkit |

BradleyTerry | Bradley-Terry models |

brlr | Bias-reduced logistic regression |

BRugs | OpenBUGS and its R interface BRugs |

BSDA | Basic Statistics and Data Analysis |

BsMD | Bayes Screening and Model Discrimination |

butler | Unit testing, profiling and benchmarking for R |

calibrate | Calibration of Biplot Axes |

caMassClass | Processing & Classification of Protein Mass Spectra (SELDI) Data |

car | Companion to Applied Regression |

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

caTools | Miscellaneous tools: I/O, moving window statistics, etc. |

catspec | Special models for categorical variables |

cba | Clustering for Business Analytics |

cclust | Convex Clustering Methods and Clustering Indexes |

CDNmoney | Components of Canadian Monetary Aggregates |

cfa | Analysis of configuration frequencies (CFA) |

CGIwithR | CGI Programming in R |

changeLOS | Change in LOS |

chplot | Augmented Convex Hull Plots |

chron | Chronological objects which can handle dates and times |

CircStats | Circular Statistics |

circular | Circular Statistics |

clac | Clust Along Chromosomes, a method to call gains/losses in CGH arr |

classInt | Choose univariate class intervals |

classPP | Projection Pursuit for supervised classification |

clim.pact | Climate analysis and downscaling package for monthly and daily da |

climatol | Some Tools for Climatology |

clines | Calculates Contour Lines |

clue | Cluster ensembles |

cluster | Cluster Analysis Extended Rousseeuw et al. |

clusterRepro | Reproducibility of gene expression clusters |

clustvarsel | Variable Selection for Model-Based Clustering |

cmprsk | Subdistribution Analysis of Competing Risks |

cobs | COBS -- Constrained B-splines |

CoCo | Bundle of CoCoGraph, CoCoObjects, CoCoCore, CoCoOldData, CoCoRaw, CoCo, CoCoCg |

cocorresp | Co-correspondence analysis ordination methods for community ecolo |

coda | Output analysis and diagnostics for MCMC |

coin | Conditional Inference Procedures in a Permutation Test Framework |

colorspace | Colorspace Manipulation |

combinat | combinatorics utilities |

compositions | Compositional Data Analysis |

concor | Concordance |

concord | Concordance and reliability |

conf.design | Construction of factorial designs |

connectedness | Find disconnected sets for two-way classification |

copula | Multivariate Dependence with Copula |

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

corpora | Statistics for corpus linguists |

covRobust | Robust Covariance Estimation via Nearest Neighbor Cleaning |

coxrobust | Robust Estimation in Cox Model |

cramer | Multivariate nonparametric Cramer-Test for the two-sample-problem |

crossdes | Design and Randomization in Crossover Studies |

crq | Censored Quantile Regression |

cslogistic | Conditionally Specified Logistic Regression |

CTFS | The CTFS Large Plot Forest Dynamics Analyses |

ctv | CRAN Task Views |

CVThresh | Level-Dependent Cross-Validation Thresholding |

cwhmisc | Bundle of cwhmath, cwhstring, cwhplot, cwhprint, cwhstat, cwhtool |

cyclones | Cyclone identification |

DAAG | Data Analysis And Graphics |

data.table | Just like a data.frame but without rownames, up to 10 times faste |

date | Functions for handling dates |

Davies | The Davies quantile function |

DBI | R Database Interface |

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

DCluster | Functions for the detection of spatial clusters of diseases |

DDHFm | Variance Stabilization by Data-Driven Haar-Fisz (for Microarrays) |

deal | Learning Bayesian Networks with Mixed Variables |

debug | MVB's debugger for R |

deldir | Delaunay Triangulation and Dirichlet (Voronoi) Tesselation. |

denpro | Visualization of multivariate, functions, sets, and data |

DEoptim | Differential Evolution Optimization |

depmix | Dependent Mixture Models |

DescribeDisplay | R interface to DescribeDisplay (GGobi plugin) |

Design | Design Package |

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)" |

dglm | Double generalized linear models |

diamonds | Analysis and sampling grids from diamond partitions |

dichromat | Color schemes for dichromats |

DICOM | Import medical imaging data using the DICOM Standard |

digest | Create cryptographic hash digests of R objects |

diptest | Hartigan's dip test statistic for unimodality - corrected code |

dispmod | Dispersion models. |

distr | Object orientated implementation of distributions |

distrEx | Extensions of package distr |

distrSim | Simulation classes based on package distr |

distrTEst | Estimation and Testing classes based on package distr |

diveMove | Dive analysis and calibration |

doBy | Groupwise computatations |

dprep | Data preprocessing and visualization functions for classification |

dr | Methods for dimension reduction for regression |

drc | Analysis of dose-response curves |

drfit | Dose-response data evaluation |

dse | Bundle of tframe, dse1, dse2 |

dyn | Time Series Regression |

dynamicGraph | dynamicGraph |

dynlm | Dynamic Linear Regression |

e1071 | Misc Functions of the Department of Statistics (e1071), TU Wien |

eba | Elimination-By-Aspects (EBA) Models |

EbayesThresh | Empirical Bayes thresholding and related methods |

Ecdat | Data sets for econometrics |

eco | R Package for Fitting Bayesian Models of Ecological Inference in |

ecodist | Dissimilarity-based functions for ecological analysis |

edci | Edge Detection and Clustering in Images |

effects | Effect Displays for Linear and Generalized Linear Models |

eha | Event History Analysis. |

elasticnet | Elastic Net Regularization and Variable Selection |

ElemStatLearn | Data sets, functions and examples from the book: "The Elements of |

ellipse | Functions for drawing ellipses and ellipse-like confidence region |

elliptic | elliptic functions |

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

emplik | Empirical likelihood ratio for censored/truncated data |

EMV | Estimation of Missing Values for a Data Matrix |

energy | E-statistics (energy statistics) tests of fit, independence, clus |

ensembleBMA | Probabilistic forecasting using Bayesian Model Averaging |

Epi | A package for statistical analysis in epidemiology. |

epitools | Epidemiology Tools |

epsi | Edge Preserving Smoothing for Images |

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

evd | Functions for extreme value distributions |

evdbayes | Bayesian Analysis in Extreme Value Theory |

evir | Extreme Values in R |

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

exactRankTests | Exact Distributions for Rank and Permutation Tests |

extRemes | Extreme value toolkit. |

FactoMineR | Factor Analysis and Data Mining with R |

Fahrmeir | Data from the book "Multivariate Statistical Modelling Based on G |

far | Modelization for Functional AutoRegressive processes |

faraway | Functions and datasets for books by Julian Faraway. |

fastICA | FastICA algorithms to perform ICA and Projection Pursuit |

fBasics | Rmetrics - Marketes and Basic Statistics |

fCalendar | Rmetrics - Chronological Objects |

fda | Functional Data Analysis |

fdim | Functions for calculating fractal dimension. |

femmeR | Output analysis of FEMME model results |

fExtremes | Rmetrics - Extreme Financial Market Data |

fgac | Generalized Archimedean Copula |

fields | Tools for spatial data |

filehash | Simple file-based hash table |

financial | Solving financial problems in R |

FLCore | Core package of FLR, fisheries modelling in R. |

flexclust | Flexible Cluster Algorithms |

flexmix | Flexible Mixture Modeling |

fMultivar | Rmetrics - Multivariate Market Analysis |

fOptions | Rmetrics - Option Valuation |

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

fork | R functions for handling multiple processes. |

FortranCallsR | Simple Fortran/C/R Interface Example |

fortunes | R Fortunes |

forward | Forward search |

fpc | Fixed point clusters, clusterwise regression and discriminant plo |

fPortfolio | Rmetrics - Portfolio Selection and Optimization |

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

FracSim | Simulation of L�vy motions |

frailtypack | Frailty models using maximum penalized likelihood estimation |

fSeries | Rmetrics - The Dynamical Process Behind Markets |

ftnonpar | Features and Strings for Nonparametric Regression |

FunCluster | Functional Profiling of cDNA Microarray Expression Data |

fuzzyRankTests | Fuzzy Rank Tests and Confidence Intervals |

g.data | Delayed-Data Packages |

gafit | Genetic Algorithm for Curve Fitting |

gam | Generalized Additive Models |

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

gamlss | Collection of functions to fit Generalized Additive Models for Lo |

GammaTest | Gamma Test Data Analysis |

gap | Genetic analysis package |

gbm | Generalized Boosted Regression Models |

gclus | Clustering Graphics |

gcmrec | General class of models for recurrent event data |

gdata | Various R programming tools for data manipulation |

GDD | GD device for creating bitmap graphics as jpeg, png or gif files |

gee | Generalized Estimation Equation solver |

geepack | Generalized Estimating Equation Package |

genalg | R Based Genetic Algorithm |

Geneland | Simulation and MCMC inference in landscape genetics |

GeneNT | Relevance or Dependency network and signaling pathway discovery |

genetics | Population Genetics |

GeneTS | Microarray Time Series and Network Analysis |

GenKern | Functions for generating and manipulating kernel density estimate |

geometry | Mesh generation and surface tesselation |

geoR | Analysis of geostatistical data |

geoRglm | geoRglm - a package for generalised linear spatial models |

ggm | Graphical Gaussian Models |

ggplot | Grammar of graphics based plots for R |

giRaph | The giRaph package for graph representation in R |

gld | Basic functions for the generalised (Tukey) lambda distribution |

gllm | Generalised log-linear model |

glmmML | Generalized linear models with random intercept |

glmpath | L1 Regularization Path for Generalized Linear Models and Cox Prop |

glpk | GNU Linear Programming Kit |

gmodels | Various R programming tools for model fitting |

gmp | Multiple Precision Arithmetic |

gmt | Interface between GMT 4.0 map-making software and R |

gnm | Generalized Nonlinear Models |

gnomeGUI | GNOME Console for R |

GPArotation | GPA Factor Rotation |

gpclib | General Polygon Clipping Library for R |

gplots | Various R programming tools for plotting data |

gpls | Classification using generalized partial least squares |

grasper | Generalized Regression Analysis and Spatial Predictions for R |

GRASS | Interface between GRASS 5.0 geographical information system and R |

gRbase | gRbase - a package for graphical modelling in R |

gregmisc | Backword compatibility package for gregmisc bundle |

gridBase | Integration of base and grid graphics |

grnnR | A Generalized Regression Neural Network |

grouped | Regression Analysis of Grouped and Coarse Data |

GroupSeq | Performing computations related to groupseqential boundaries. |

gsl | wrapper for the Gnu Scientific Library |

gss | General Smoothing Splines |

gstat | geostatistical modelling, prediction and simulation |

gsubfn | Like gsub but with replacement function instead of string |

gtkDevice | Loadable and embeddable gtk device driver for R |

gtools | Various R programming tools |

hapassoc | Likelihood inference of trait associations with SNP haplotypes an |

haplo.ccs | Estimate Haplotype Relative Risks in Case-Control Data |

haplo.stats | Statistical Analysis of Haplotypes with Traits and Covariates whe |

hapsim | Haplotype Data Simulation |

hddplot | Use known groups in high-dimensional data to derive scores for pl |

hdf5 | HDF5 |

hdrcde | Highest density regions and conditional density estimation |

hett | Heteroscedastic t regression |

HI | Simulation from distributions supported by nested hyperplanes |

hier.part | Hierarchical Partitioning |

hierfstat | Estimation and tests of hierarchical F-statistics |

HighProbability | HighProbability estimates which alternative hypotheses have frequ |

Hmisc | Harrell Miscellaneous |

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

hoa | Bundle of cond, marg, nlreg, csampling |

homals | Homogeneity Analysis in R |

hopach | Hierarchical Ordered Partitioning and Collapsing Hybrid (HOPACH) |

howmany | A lower bound for the number of correct rejections |

HSAUR | A Handbook of Statistical Analyses Using R |

HTMLapplets | Dynamic visualisation in HTML documents |

httpRequest | Basic HTTP Request |

hwde | Models and tests for departure from Hardy-Weinberg equilibrium an |

hybridHclust | Hybrid hierarchical clustering |

HyperbolicDist | The hyperbolic distribution |

ICE | Iterated Conditional Expectation |

Icens | NPMLE for Censored and Truncated Data |

IDPmisc | Utilities of Institute of Data Analyses and Process Design (www.i |

ifs | Iterated Function Systems |

igraph | Routines for network analysis. |

iid.test | iid-test |

impute | impute: Imputation for microarray data |

ineq | Measuring inequality, concentration and poverty |

intcox | Iterated Convex Minorant Algorithm for interval censored event da |

ipred | Improved Predictors |

irr | Various Coefficients of Interrater Reliability and Agreement |

ismev | An Introduction to Statistical Modeling of Extreme Values |

ISwR | Introductory Statistics with R |

its | Irregular Time Series |

JavaGD | Java Graphics Device |

JLLprod | Nonparametric Estimation of Homothetic and Generalized Homothetic |

JointGLM | Joint Modelling of Mean and Dispersion |

kappalab | Non-additive measure and integral manipulation functions |

Kendall | Kendall rank correlation and Mann-Kendall trend test |

kernlab | Kernel Methods Lab |

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

kinship | mixed-effects Cox models, sparse matrices, and modeling data from |

kknn | Weighted k-Nearest Neighbors |

klaR | Classification and visualization |

km.ci | Confidence intervals for the Kaplan-Meier estimator |

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

knncat | Nearest-neighbor classification with categorical variables |

knnFinder | Fast Near Neighbour Search |

knnTree | k-nn classification with variable selection inside leaves of a tr |

kohonen | Supervised and unsupervised self-organising maps |

ks | Kernel smoothing |

kza | Kolmogorov-Zurbenko Adaptive Filter for Image Detection |

kzft | Kolmogorov-Zurbenko Fourier transform and application |

labdsv | Laboratory for Dynamic Synthetic Vegephenomenology |

labstatR | Libreria del Laboratorio di Statistica con R |

lars | Least Angle Regression, Lasso and Forward Stagewise |

lasso2 | L1 constrained estimation aka 'lasso' |

latentnet | Latent position and cluster models for statistical networks |

lattice | Lattice Graphics |

latticeExtra | Extra Graphical Displays based on lattice |

lazy | Lazy Learning for Local Regression |

ldDesign | Design of experiments for detection of linkage disequilibrium |

LDheatmap | Graphical display of pairwise linkage disequilibria between SNPs |

leaps | regression subset selection |

lgtdl | A set of methods for longitudinal data objects. |

limma | Linear Models for Microarray Data |

linprog | Linear Programming / Optimization |

lme4 | Linear mixed-effects models using S4 classes |

lmeSplines | lmeSplines |

LMGene | LMGene Software for Date Transformation and Identification of Dif |

lmm | Linear mixed models |

lmomco | L-moments, L-comoments, Trimmed L-moments, and Distributions |

Lmoments | L-moments and quantile mixtures |

lmtest | Testing Linear Regression Models |

locfdr | Computes local false discovery rates |

locfit | Local Regression, Likelihood and Density Estimation. |

lodplot | Plot a genome scan |

LogicReg | Logic Regression |

logistf | Firth's bias reduced logistic regression |

logspline | Logspline density estimation routines |

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

longitudinal | Analysis of Multiple Time Course Data |

longmemo | Statistics for Long-Memory Processes (Jan Beran) -- Data and Func |

LoopAnalyst | A collection of tools to conduct Levins' Loop Analysis |

LowRankQP | Low Rank Quadratic Programming |

lpridge | Local Polynomial (Ridge) Regression |

lpSolve | Interface to Lp_solve v. 5.5 to solve linear/integer programs |

lsa | Latent Semantic Analysis |

lspls | LS-PLS Models |

ltm | Latent Trait Models under IRT |

maanova | Tools for analyzing Micro Array experiments |

magic | create and investigate magic squares |

mapdata | Extra Map Databases |

mapLD | Linkage Disequilibrium Mapping |

mapproj | Map Projections |

maps | Draw Geographical Maps |

maptools | tools for reading and handling shapefiles |

maptree | Mapping, pruning, and graphing tree models |

mAr | Multivariate AutoRegressive analysis |

MarkedPointProcess | Analysis of Marks of Marked Point Processes |

Matching | Multivariate and Propensity Score Matching with Balance Optimizat |

MatchIt | MatchIt: Nonparametric Preprocessing for Parametric Casual Infere |

mathgraph | Directed and undirected graphs |

matlab | MATLAB emulation package |

Matrix | A Matrix package for R |

maxstat | Maximally Selected Rank Statistics |

mblm | Median-Based Linear Models |

mcgibbsit | Warnes and Raftery's MCGibbsit MCMC diagnostic |

mclust | Model-based cluster analysis |

mcmc | Markov Chain Monte Carlo |

MCMCpack | Markov chain Monte Carlo (MCMC) Package |

mda | Mixture and flexible discriminant analysis |

MEMSS | Data sets from Mixed-effects Models in S |

merror | Accuracy and Precision of Measurements |

meta | Meta-Analysis |

mfp | Multivariable Fractional Polynomials |

mgcv | GAMs with GCV smoothness estimation and GAMMs by REML/PQL |

mice | Multivariate Imputation by Chained Equations |

micEcdat | Individual data sets for micro-econometrics |

micEcon | Microeconomics |

mimR | A package for graphical modelling in R |

minpack.lm | R interface for MINPACK least squares optimization library |

misc3d | Miscellaneous 3D Plots |

mitools | Tools for multiple imputation of missing data |

mix | Estimation/multiple Imputation for Mixed Categorical and Continuo |

mixreg | Functions to fit mixtures of regressions. |

mlbench | Machine Learning Benchmark Problems |

mlica | Independent Component Analysis using Maximum Likelihood |

mlmRev | Examples from Multilevel Modelling Software Review |

mmlcr | Mixed-Mode Latent Class Regression |

mnormt | The multivariate normal and t distributions |

MNP | R Package for Fitting the Multinomial Probit Model |

moc | GENERAL NONLINEAR MIXTURES OF CURVES |

modeltools | Tools and Classes for Statistical Models |

moments | Moments, skewness, kurtosis and related tests |

monoProc | strictly monotone smoothing procedure |

monreg | Nonparametric monotone regression |

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

MSBVAR | Bayesian Vector Autoregression Models, Impulse Responses and Fore |

msm | Multi-state Markov and hidden Markov models in continuous time |

muhaz | Hazard Function Estimation in Survival Analysis |

multcomp | Multiple Tests and Simultaneous Confidence Intervals |

multilevel | Multilevel Functions |

multinomRob | Robust Estimation of Overdispersed Multinomial Regression Models |

multtest | Resampling-based multiple hypothesis testing |

mvbutils | MVB's utilities for R |

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 |

mvtnorm | Multivariate Normal and T Distribution |

NADA | Nondetects And Data Analysis for environmental data |

ncdf | Interface to Unidata netCDF data files |

ncomplete | ncomplete |

ncvar | High-level R Interface to NetCDF Datasets |

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

network | Classes for Relational Data |

neural | Neural Networks |

nFDR | Nonparametric Estimate of FDR Based on Bernstein Polynomials |

nice | Get or Set UNIX Niceness |

NISTnls | Nonlinear least squares examples from NIST |

nlme | Linear and nonlinear mixed effects models |

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

nltm | Nonlinear Transformation Models |

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

norm | Analysis of multivariate normal datasets with missing values |

normalp | Package for exponential power distributions (EPD) |

NORMT3 | Evaluates complex erf, erfc and density of sum of Gaussian and St |

nortest | Tests for Normality |

noverlap | ncomplete |

npmc | Nonparametric Multiple Comparisons |

numDeriv | Accurate Numerical Derivatives |

nws | R functions for NetWorkSpaces and Sleigh |

Oarray | Arrays with arbitrary offsets |

odesolve | Solvers for Ordinary Differential Equations |

onion | octonions and quaternions |

optmatch | Functions for optimal matching |

orientlib | Support for orientation data |

ouch | Ornstein-Uhlenbeck models for phylogenetic comparative hypotheses |

outliers | Tests for outliers |

oz | Plot the Australian coastline and states |

pamr | Pam: prediction analysis for microarrays |

pan | Multiple imputation for multivariate panel or clustered data |

panel | Panel |

papply | Parallel apply function using MPI |

partsm | Periodic Autoregressive Time Series Models |

party | A Laboratory for Recursive Part(y)itioning |

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

pbatR | Frontend to PBAT to run within R. |

PBSmapping | PBS Mapping 2 |

pcaPP | Robust PCA by Projection Pursuit |

pcurve | Principal Curve analysis |

pear | Package for Periodic Autoregression Analysis |

permax | permax |

permtest | Permutation test to compare variability within and distance betwe |

perturb | Tools for evaluating collinearity |

pgam | Poisson-Gamma Additive Models. |

pgirmess | Data analysis in ecology |

pheno | Auxiliary functions for phenological data analysis |

phpSerialize | Serialize R to PHP associative array |

PHYLOGR | Functions for phylogenetically based statistical analyses |

pinktoe | Graphically traverse a tree via GUI widgets or web based system |

pixmap | Bitmap Images ("Pixel Maps") |

PK | Basic Pharmacokinetics |

PKfit | PKfit- A Tool for Data Analysis in Pharmacokinetics |

plotrix | Various plotting functions |

pls.pcr | PLS and PCR functions |

pls | Partial Least Squares Regression (PLSR) and Principal Component R |

plsgenomics | PLS analyses for genomics |

plugdensity | Plug-in Kernel Density Estimation |

polspline | Polynomial spline routines |

polyapost | Simulating from the Polya posterior |

polycor | Polychoric and Polyserial Correlations |

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

popgen | Statistical and Population Genetics |

portfolio | Analysing equity portfolios |

POT | Generalized Pareto Distribution and Peaks Over Threshold |

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

ppc | Peak Probability Contrasts |

pps | Functions for PPS sampling |

prabclus | Test for clustering of presence-absence data |

princurve | Fits a Principal Curve in Arbitrary Dimension |

ProbForecastGOP | Probabilistic Weather Field Forecast using the GOP method |

proto | Prototype object-based programming |

pscl | Political Science Computational Laboratory, Stanford University |

pspline | Penalized Smoothing Splines |

psy | Various procedures used in psychometry |

PTAk | Principal Tensor Analysis on k modes |

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

pwr | Basic functions for power analysis |

pwt | Penn World Table |

QCA | Qualitative Comparative Analysis |

qcc | Quality Control Charts |

qtl | Tools for analyzing QTL experiments |

qtlDesign | Design of QTL experiments |

quadprog | Functions to solve Quadratic Programming Problems. |

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

quantreg | Quantile Regression |

quantregForest | Quantile Regression Forests |

qvalue | Q-value estimation for false discovery rate control |

qvcalc | Quasi variances for factor effects in statistical models |

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

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

R.utils | Various programming utilities |

R2HTML | HTML exportation for R objects |

R2WinBUGS | Running WinBUGS from R |

race | Racing methods for the selection of the best |

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

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

randaes | Random number generator based on AES cipher |

RandomFields | Simulation and Analysis of Random Fields |

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

RandVar | Implementation of random variables |

rankreg | Rank regression for censored data AFT model. |

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

RBloomberg | R/Bloomberg |

rbugs | Fusing R and OpenBugs |

rcdd | rcdd (C Double Description for R) |

Rcmdr | R Commander |

RColorBrewer | ColorBrewer palettes |

rcom | R COM Client Interface and internal COM Server |

RcppTemplate | Rcpp R/C++ interface library package template |

rda | Shrunken Centroids Regularized Discriminant Analysis |

ref | References for R |

regress | Gaussian linear models with linear covariance structure |

relaimpo | Relative importance of regressors in linear models |

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

reldist | Relative Distribution Methods |

relimp | Relative Contribution of Effects in a Regression Model |

relsurv | Relative survival regression |

reshape | Flexibly reshape data. |

ResistorArray | electrical properties of resistor networks |

resper | Sampling from restricted permutations |

RFA | Regional Frequency Analysis |

Rfwdmv | Forward Search for Multivariate Data |

rgdal | Bindings for the Geospatial Data Abstraction Library |

rgenoud | R version of GENetic Optimization Using Derivatives |

rggobi | Interface between R and GGobi |

rgl | 3D visualization device system (OpenGL) |

RGrace | RGrace |

RGraphics | Data and Functions from the book R Graphics |

RII | Relative index of inequality estimation |

rimage | Image Processing Module for R |

riv | Robust instrumental variables estimator |

rJava | Low-level R to Java interface |

Rlab | Functions and Datasets Required for ST370 class |

rlecuyer | R interface to RNG with multiple streams |

RLMM | A Genotype Calling Algorithm for Affymetrix SNP Arrays |

Rlsf | Interface to the LSF Queuing System |

Rmdr | R-Multifactor Dimensionality Reduction |

rmeta | Meta-analysis |

rmetasim | An individual-based population genetic simulation environment |

Rmpi | Interface (Wrapper) to MPI (Message-Passing Interface) |

RMySQL | R interface to the MySQL database |

RNetCDF | R Interface to NetCDF Datasets |

roblm | MM-regression estimators |

robustbase | Basic Robust Statistics |

ROCR | Visualizing the performance of scoring classifiers. |

RODBC | ODBC database access |

ROracle | Oracle database interface for R |

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

rpart.permutation | Permutation testing of rpart models |

rpart | Recursive Partitioning |

rpvm | R interface to PVM (Parallel Virtual Machine) |

rqmcmb2 | Markov Chain Marginal Bootstrap for Quantile Regression |

RQuantLib | R interface to the QuantLib library |

rrcov | Scalable Robust Estimators with High Breakdown Point |

rrp | Random Recursive Partitioning |

RScaLAPACK | A seamless interface to perform parallel computation on linear al |

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

RSQLite | SQLite interface for R |

rstream | Streams of random numbers |

RSvgDevice | An R SVG graphics device. |

rtiff | A tiff reader for R. |

RUnit | R Unit test framework |

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

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

RWeka | R/Weka interface |

RWinEdt | R-WinEdt |

rwt | Rice Wavelet Toolbox wrapper |

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

sac | Semiparametric Analysis of Changepoint |

SAGx | Statistical Analysis of the GeneChip |

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

sampling | Sampling survey |

samr | SAM: Significance Analysis of Microarrays |

sandwich | Robust Covariance Matrix Estimators |

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

sca | Simple Component Analysis |

scape | Statistical catch-at-age plotting environment |

scapeMCMC | MCMC diagnostic plots |

scatterplot3d | 3D Scatter Plot |

SciViews | Bundle of svMisc, svIO, svViews, svDialogs, svSocket, svGUI, svIDE, svWidgets |

scope | Data Manipulation Using Arbitrary Row and Column Criteria |

scuba | Scuba diving calculations and decompression models |

seacarb | Calculates parameters of the seawater carbonate system |

seas | Seasonal analysis and graphics, especially for climatology |

seewave | Time wave analysis and graphical representation |

segmented | Segmented relationships in regression models |

sem | Structural Equation Models |

SemiPar | Semiparametic Regression |

SensoMineR | Sensory data analysis with R |

SenSrivastava | Datasets from Sen & Srivastava |

seqinr | Biological Sequences Retrieval and Analysis |

SeqKnn | Sequential KNN imputation method |

seqmon | Sequential Monitoring of Clinical Trials |

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

setRNG | Set (normal) random number generator and seed |

sfsmisc | Utilities from Seminar fuer Statistik ETH Zurich |

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

shapefiles | Read and Write ESRI Shapefiles |

shapes | Statistical shape analysis |

SharedHT2 | Shared Hotelling T2 test for small sample microarray experiments |

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

simpleboot | Simple Bootstrap Routines |

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

skewt | The Skewed Student-t Distribution |

sm | Smoothing methods for nonparametric regression and density estima |

sma | Statistical Microarray Analysis |

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

smoothSurv | Survival Regression with Smoothed Error Distribution |

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

sna | Tools for Social Network Analysis |

snow | Simple Network of Workstations |

snowFT | Fault Tolerant Simple Network of Workstations |

som | Self-Organizing Map |

SoPhy | Soil Physics Tools |

sound | A Sound Interface for R |

sp | classes and methods for spatial data |

SparseLogReg | Sparse logistic regression |

SparseM | Sparse Linear Algebra |

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

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

spc | Statistical Process Control |

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

spe | Stochastic Proximity Embedding |

spectralGP | Approximate Gaussian processes using the Fourier basis |

spectrino | Spectra organizer, visualization and data extraction |

spgwr | Geographically weighted regression |

splancs | Spatial and Space-Time Point Pattern Analysis |

ssanv | Sample Size Adjusted for Nonadherence or Variability of input par |

sspir | State Space Models in R |

StatDataML | Read and write StatDataML files |

statmod | Statistical Modeling |

stepwise | Stepwise detection of recombination breakpoints |

StoppingRules | Stopping rules for microarray classifiers |

strucchange | Testing for Structural Change |

subselect | Selecting variable subsets |

sudoku | Sudoku Puzzle Generator and Solver |

supclust | Supervised Clustering of Genes |

superpc | Supervised principal components |

SuppDists | Supplementary distributions |

survBayes | Fits a proportional hazards model to time to event data by a Baye |

surveillance | Outbreak detection algorithms for surveillance data |

survey | analysis of complex survey samples |

survival | Survival analysis, including penalised likelihood. |

survrec | Survival analysis for recurrent event data |

svmpath | svmpath: the SVM Path algorithm |

SwissAir | Air Quality Data of Switzerland for one year in 30 min Resolution |

systemfit | Simultaneous Equation Estimation Package |

tapiR | Tools for accessing UK parliamentary information in R |

taskPR | Task-Parallel R Package |

tcltk2 | SciViews GUI API - More tcltk |

tdist | Distribution of a linear combination of independent Student's t-v |

tdthap | TDT tests for extended haplotypes |

TeachingDemos | Demonstrations for teaching and learning |

tensor | Tensor product of arrays |

tgp | Bayesian treed Gaussian process models |

time | Time tracking for developers |

tkrplot | TK Rplot |

tlnise | Two-level normal independent sampling estimation |

tree | Classification and regression trees |

treeglia | Stem-analysis on tree cross-sections |

tripack | Triangulation of irregularly spaced data |

truncgof | GoF tests allowing for left truncated data |

trust | Trust Region Optimization |

tseries | Time series analysis and computational finance |

tseriesChaos | Analysis of nonlinear time series |

tsfa | Time Series Factor Analysis |

tuneR | Analysis of music |

twang | Toolkit for Weighting and Analysis of Nonequivalent Groups |

tweedie | Tweedie exponential family models |

udunits | interface to Unidata's routines to convert units |

ump | Uniformly Most Powerful Tests |

UNF | Tools for creating universal numeric fingerprints for data. |

untb | ecological drift under the UNTB |

urca | Unit root and cointegration tests for time series data |

urn | Urn : Sampling Without Replacement |

uroot | Unit Root Tests and Graphics for Seasonal Time Series |

UsingR | Data sets for the text "Using R for Introductory Statistics" |

USPS | Unsupervised and Supervised methods of Propensity Score Adjustmen |

vabayelMix | Variational Bayesian Mixture Modelling |

VaR | Value at Risk estimation |

vardiag | A package for variogram diagnostics |

varmixt | Mixture model on the Variance for the analysis of gene expression |

varSelRF | Variable selection using random forests |

vcd | Visualizing Categorical Data |

VDCutil | utilities supporting the VDC system |

vegan | Community Ecology Package |

verification | Forecast verification utilities. |

verify | Construction of test suites using verify objects |

vioplot | Violin plot |

VLMC | VLMC -- Variable Length Markov Chains |