affy

Methods for Affymetrix Oligonucleotide Arrays

The package contains functions for exploratory oligonucleotide array analysis. The dependance to tkWidgets only concerns few convenience functions. 'affy' is fully functional without it.

Author Rafael A. Irizarry , Laurent Gautier , Benjamin Milo Bolstad , and Crispin Miller with contributions from Magnus Astrand , Leslie M. Cope , Robert Gentleman, Jeff Gentry, Conrad Halling , Wolfgang Huber, James MacDonald , Benjamin I. P. Rubinstein, Christopher Workman , John Zhang

Maintainer Rafael A. Irizarry

To install this package, start R and enter:

 source("http://bioconductor.org/biocLite.R")
 biocLite("affy")

Vignettes (Documentation)

Package Downloads

affy.pdf

builtinMethods.pdf

customMethods.pdf

dealing_with_cdfenvs.pdf

vim.pdf

Source	affy_1.18.2.tar.gz
Windows binary	affy_1.18.2.zip
OS X binary	affy_1.18.2.tgz

Details

Imports
biocViews	Microarray , OneChannel , Preprocessing
Depends	R, Biobase, methods, utils, affyio, preprocessCore
Suggests	tkWidgets, affydata, geneplotter
SystemRequirements
License	LGPL (>= 2.0)
URL
dependsOnMe	AffyExpress, GeneTraffic, Harshlight, RefPlus, adSplit, affyPLM, affyPara, affyQCReport, affycoretools, affylmGUI, affypdnn, altcdfenvs, beadarray, bgx, ecolitk, exonmap, factDesign, gcrma, lumi, maDB, makecdfenv, matchprobes, panp, plier, plw, puma, rHVDM, simpleaffy, sscore, tilingArray, vsn, webbioc
suggestsMe	BiocCaseStudies, BufferedMatrixMethods, beadarraySNP, hexbin, limma, made4, oneChannelGUI, siggenes