Package Index

affy	Methods for Affymetrix Oligonucleotide Arrays
affydata	Affymetrix Data for Demonstration Purpose
affylmGUI	GUI for affy analysis using limma package
affyPLM	affyPLM - Probe Level Models
annaffy	Annotation tools for Affymetrix biological metadata
annotate	Annotation for microarrays
base	The R Base Package
Biobase	Biobase: Base functions for Bioconductor
boot	Bootstrap R (S-Plus) Functions (Canty)
class	Functions for Classification
cluster	Functions for clustering (by Rousseeuw et al.)
convert	Convert Microarray Data Objects
ctest	Defunct Package for Classical Tests
DynDoc	Dynamic document tools
eda	Defunct Package for Exploratory Data Analysis
edd	expression density diagnostics
fibroEset	exprSet for Karaman et al. (2003) fibroblasts data
foreign	Read data stored by Minitab, S, SAS, SPSS, Stata, ...
fxpy	FXPy Interface (Prototype)
gcrma	Background Adjustment Using Sequence Information
genefilter	Genefilter: filter genes
geneplotter	Geneplotter: plot microarray data
globaltest	Testing Association of a Group of Genes with a Clinical Variable
GO	A data package containing annotation data for GO
golubEsets	exprSets for golub leukemia data
graphics	The R Graphics Package
grid	The Grid Graphics Package
hgu133a	A data package containing annotation data for hgu133a
hgu133acdf	hgu133acdf
hgu95av2	A data package containing annotation data for hgu95av2
hgu95av2cdf	hgu95av2cdf
hgu95av2probe	Probe sequence data for microarrays of type hgu95av2
hu6800	A data package containing annotation data for hu6800
KEGG	A data package containing annotation data for KEGG
KernSmooth	Functions for kernel smoothing for Wand & Jones (1995)
lattice	Lattice Graphics
limma	Linear Models for Microarray Data
limmaGUI	GUI for limma package
lqs	Resistant Regression and Covariance Estimation
makecdfenv	CDF Environment Maker
marray	Exploratory analysis for two-color spotted microarray data
marrayClasses	Classes and methods for cDNA microarray data
marrayInput	Data input for cDNA microarrays
marrayNorm	Location and scale normalization for cDNA microarray data
marrayPlots	Diagnostic plots for cDNA microarray data
marrayTools	Miscellaneous functions for cDNA microarrays
MASS	Main Package of Venables and Ripley's MASS
matchprobes	Tools for sequence matching of probes on arrays
Matrix	A Matrix package for R
methods	Formal Methods and Classes
mgcv	Multiple smoothing parameter estimation and GAMs by GCV
mle	Defunct package for maximum likelihood estimation
modreg	Defunct Package for Modern Regression: Smoothing and Local Methods
multtest	Multiple Testing Procedures
mva	Defunct Package for Classical Multivariate Analysis
nlme	Linear and nonlinear mixed effects models
nls	Defunct Package for Nonlinear Regression
nnet	Feed-forward Neural Networks and Multinomial Log-Linear Models
pamr	Pam: prediction analysis for microarrays
R2HTML	HTML exportation for R objects
reposTools	Repository tools for R
ROC	utilities for ROC, with uarray focus
rpart	Recursive Partitioning
RSPython	Interface between Python and S language
siggenes	Significance and Empirical Bayes Analyses of Microarrays
sma	Statistical Microarray Analysis
spatial	Functions for Kriging and Point Pattern Analysis
splines	Regression Spline Functions and Classes
statmod	Statistical Modeling
stats	The R Stats Package
stats4	Statistical functions using S4 classes
stepfun	Defunct Package for Step Functions, incl. Empirical Distributions
survival	Survival analysis, including penalised likelihood.
tcltk	Tcl/Tk Interface
tkrplot	TK Rplot
tkWidgets	R based tk widgets
tools	Tools for Package Development
ts	Defunct Package of Time Series Functions
utils	The R Utils Package
vsn	Variance stabilization and calibration for microarray data
widgetTools	Creates an interactive tcltk widget
wxPython	wxPython Interface (Unstable - evolving rapidly)
XML	Tools for parsing and generating XML within R and S-Plus.
xtable	Export tables to LaTeX or HTML