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Package Maintainer Title
AffyExpress Xuejun Arthur Li Affymetrix Quality Assessment and Analysis Tool
apComplex Denise Scholtens Estimate protein complex membership using AP-MS protein data
arrayQuality Agnes Paquet Assessing array quality on spotted arrays
ArrayTools Arthur Li geneChip Analysis Package
BioMVCClass Elizabeth Whalen Model-View-Controller (MVC) Classes That Use Biobase
cellHTS Ligia Bras Analysis of cell-based screens
cellHTS2 Florian Hahne Analysis of cell-based screens - revised version of cellHTS
CGHcall Sjoerd Vosse Calling aberrations for array CGH tumor profiles.
CGHregions Sjoerd Vosse Dimension Reduction for Array CGH Data with Minimal Information Loss.
copa James W. MacDonald Functions to perform cancer outlier profile analysis.
ctc Antoine Lucas Cluster and Tree Conversion.
EBImage Gregoire Pau Image processing and image analysis toolkit for R
ecolitk Laurent Meta-data and tools for E. coli
exonmap Crispin Miller High level analysis of Affymetrix exon array data
explorase Michael Lawrence GUI for exploratory data analysis of systems biology data
flowClust Raphael Gottardo Clustering for Flow Cytometry
flowViz Florian Hahne Visualization for flow cytometry
gaggle Dan Tenenbaum Broadcast data between R and other bioinformatics programs
geneplotter Biocore Team c/o BioC user list Grapics related functions for Bioconductor
GenomeGraphs Steffen Durinck Plotting genomic information from Ensembl
goTools Agnes Paquet Functions for Gene Ontology database
Heatplus Alexander Ploner A heat map displaying covariates and coloring clusters
HELP Reid F. Thompson Tools for HELP data analysis
hexbin Nicholas Lewin-Koh Hexagonal Binning Routines
HilbertVis Simon Anders Hilbert curve visualization
HilbertVisGUI Simon Anders HilbertVisGUI
idiogram Karl J. Dykema idiogram
KCsmart Jorma de Ronde Multi sample aCGH analysis package using kernel convolution
macat Joern Toedling MicroArray Chromosome Analysis Tool
maCorrPlot Alexander Ploner Visualize artificial correlation in microarray data
maDB Johannes Rainer Microarray database and utility functions for microarray data analysis.
MergeMaid Xiaogang Zhong Merge Maid
MVCClass Elizabeth Whalen Model-View-Controller (MVC) Classes
OLIN Matthias Futschik Optimized local intensity-dependent normalisation of two-color microarrays
OLINgui Matthias Futschik Graphical user interface for OLIN
prada Florian Hahne Data analysis for cell-based functional assays
quantsmooth Jan Oosting Quantile smoothing and genomic visualization of array data
reb Karl J. Dykema Regional Expression Biases
RNAither Nora Rieber Statistical analysis of high-throughput RNAi screens
rtracklayer Michael Lawrence R interface to genome browsers and their annotation tracks
SIM Maarten van Iterson Integrated Analysis of gene expression and copynumber data
simpleaffy Crispin Miller Very simple high level analysis of Affymetrix data
SNPchip Robert Scharpf Classes and Methods for high throughput SNP chip data
tilingArray W. Huber Analysis of high-density oligonucleotide tiling arrays
topGO Adrian Alexa topGO: Enrichment analysis for Gene Ontology
VanillaICE Robert Scharpf Methods for fitting Hidden Markov Models to SNP chip data
xmapbridge Tim Yates Export plotting files to the xmapBridge for visualisation in X:Map