Package Index


affyMethods for Affymetrix Oligonucleotide Arrays
affydataAffymetrix Data for Demonstration Purpose
affylmGUIGUI for affy analysis using limma package
affyPLMaffyPLM - Probe Level Models
annaffyAnnotation tools for Affymetrix biological metadata
annotateAnnotation for microarrays
baseThe R Base Package
BiobaseBiobase: Base functions for Bioconductor
bootBootstrap R (S-Plus) Functions (Canty)
classFunctions for Classification
clusterFunctions for clustering (by Rousseeuw et al.)
convertConvert Microarray Data Objects
ctestDefunct Package for Classical Tests
DynDocDynamic document tools
edaDefunct Package for Exploratory Data Analysis
eddexpression density diagnostics
fibroEsetexprSet for Karaman et al. (2003) fibroblasts data
foreignRead data stored by Minitab, S, SAS, SPSS, Stata, ...
fxpyFXPy Interface (Prototype)
gcrmaBackground Adjustment Using Sequence Information
genefilterGenefilter: filter genes
geneplotterGeneplotter: plot microarray data
globaltestTesting Association of a Group of Genes with a Clinical Variable
GOA data package containing annotation data for GO
golubEsetsexprSets for golub leukemia data
graphicsThe R Graphics Package
gridThe Grid Graphics Package
hgu133aA data package containing annotation data for hgu133a
hgu95av2A data package containing annotation data for hgu95av2
hgu95av2probeProbe sequence data for microarrays of type hgu95av2
hu6800A data package containing annotation data for hu6800
KEGGA data package containing annotation data for KEGG
KernSmoothFunctions for kernel smoothing for Wand & Jones (1995)
latticeLattice Graphics
limmaLinear Models for Microarray Data
limmaGUIGUI for limma package
lqsResistant Regression and Covariance Estimation
makecdfenvCDF Environment Maker
marrayExploratory analysis for two-color spotted microarray data
marrayClassesClasses and methods for cDNA microarray data
marrayInputData input for cDNA microarrays
marrayNormLocation and scale normalization for cDNA microarray data
marrayPlotsDiagnostic plots for cDNA microarray data
marrayToolsMiscellaneous functions for cDNA microarrays
MASSMain Package of Venables and Ripley's MASS
matchprobesTools for sequence matching of probes on arrays
MatrixA Matrix package for R
methodsFormal Methods and Classes
mgcvMultiple smoothing parameter estimation and GAMs by GCV
mleDefunct package for maximum likelihood estimation
modregDefunct Package for Modern Regression: Smoothing and Local Methods
multtestMultiple Testing Procedures
mvaDefunct Package for Classical Multivariate Analysis
nlmeLinear and nonlinear mixed effects models
nlsDefunct Package for Nonlinear Regression
nnetFeed-forward Neural Networks and Multinomial Log-Linear Models
pamrPam: prediction analysis for microarrays
R2HTMLHTML exportation for R objects
reposToolsRepository tools for R
ROCutilities for ROC, with uarray focus
rpartRecursive Partitioning
RSPythonInterface between Python and S language
siggenesSignificance and Empirical Bayes Analyses of Microarrays
smaStatistical Microarray Analysis
spatialFunctions for Kriging and Point Pattern Analysis
splinesRegression Spline Functions and Classes
statmodStatistical Modeling
statsThe R Stats Package
stats4Statistical functions using S4 classes
stepfunDefunct Package for Step Functions, incl. Empirical Distributions
survivalSurvival analysis, including penalised likelihood.
tcltkTcl/Tk Interface
tkrplotTK Rplot
tkWidgetsR based tk widgets
toolsTools for Package Development
tsDefunct Package of Time Series Functions
utilsThe R Utils Package
vsnVariance stabilization and calibration for microarray data
widgetToolsCreates an interactive tcltk widget
wxPythonwxPython Interface (Unstable - evolving rapidly)
XMLTools for parsing and generating XML within R and S-Plus.
xtableExport tables to LaTeX or HTML