DOI: 10.18129/B9.bioc.simpleaffy    

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This package is for version 3.12 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see simpleaffy.

Very simple high level analysis of Affymetrix data

Bioconductor version: 3.12

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 <cmiller at>

Citation (from within R, enter citation("simpleaffy")):


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PDF R Script simpleaffy primer
PDF   Reference Manual


biocViews Annotation, DataImport, DifferentialExpression, Microarray, OneChannel, Preprocessing, QualityControl, ReportWriting, Software, Transcription, Visualization
Version 2.66.0
In Bioconductor since BioC 1.6 (R-2.1) or earlier (> 16 years)
License GPL (>= 2)
Depends R (>= 2.0.0), methods, utils, grDevices, graphics, stats, BiocGenerics(>= 0.1.12), Biobase, affy(>= 1.33.6), genefilter, gcrma
Imports methods, utils, grDevices, graphics, stats, BiocGenerics, Biobase, affy, genefilter, gcrma
Depends On Me yaqcaffy
Imports Me affyQCReport, arrayMvout
Suggests Me AffyExpress, ArrayTools, ELBOW
Links To Me
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Source Package simpleaffy_2.66.0.tar.gz
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