simpleaffy

Very simple high level analysis of Affymetrix data

Bioconductor version: Development (2.8)

Provides high level functions for reading Affy .CEL files, phenotypic data, and then computing simple things with it, such as t-tests, fold changes and the like. Makes heavy use of the affy library. Also has some basic scatter plot functions and mechanisms for generating high resolution journal figures...

Author: Crispin J Miller

Maintainer: Crispin Miller

To install this package, start R and enter:

source("http:///biocLite.R")
biocLite("simpleaffy")    

Documentation

PDF		QCandSimpleaffy.pdf
PDF	R Script	simpleaffy primer

Reference Manual

Details

biocViews	Microarray, OneChannel, QualityControl, Preprocessing, Transcription, DataImport, Bioinformatics, DifferentialExpression, Annotation, ReportWriting, Visualization
Depends	R, affy, genefilter, Biobase, methods, utils, gcrma
Imports	affy, Biobase, gcrma, genefilter, graphics, grDevices, methods, stats, utils
Suggests
System Requirements
License	GPL (>= 2)
URL	http://www.bioconductor.org, http://bioinformatics.picr.man.ac.uk/simpleaffy/
Depends On Me	yaqcaffy
Imports Me	affyQCReport, arrayMvout, arrayQualityMetrics
Suggests Me	AffyExpress, ArrayTools
Version	2.27.1

Package Downloads

Package Source	simpleaffy_2.27.1.tar.gz
Windows Binary	simpleaffy_2.27.1.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary	simpleaffy_2.27.1.tgz
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