What documentation exists for R?

Chapter 5: R Add-On Packages 67
Icens Functions for computing the NPMLE for censored and truncated data.
KEGGSOAP
Client-side SOAP access KEGG.
LMGene Analysis of microarray data using a linear model and glog data transformation.
LPE Significance analysis of microarray data with small number of replicates using
the Local Pooled Error (LPE) method.
MANOR Micro-Array NORmalization.
MCRestimate
Misclassification error estimation with cross-validation.
MLInterfaces
Uniform interfaces to machine learning code for the exprSet class from Bioconductor.
MVCClass
Model-View-Controller (MVC) classes.
MantelCorr
Compute Mantel Cluster Correlations.
MeasurementError.cor
Two-stage measurement error model for correlation estimation with smaller
bias than the usual sample correlation.
MergeMaid
Cross-study comparison of gene expression array data.
Mfuzz Soft clustering of time series gene expression data.
MiPP Misclassification Penalized Posterior Classification.
OCplus Operating characteristics plus sample size and local fdr for microarray experiments.
OLIN Optimized Local Intensity-dependent Normalisation of two-color microarrays.
OLINgui Graphical user interface for OLIN.
OrderedList
Similarities of ordered gene lists.
PROcess Ciphergen SELDI-TOF processing.
RBGL An interface between the graph package and the Boost graph libraries, allowing
for fast manipulation of graph objects in R.
RLMM A genotype calling algorithm for Affymetrix SNP arrays.
RMAGEML
Functionality to handle MAGEML documents.
RMAPPER
Interface to mapper.chip.org.