To install this package, start R and enter:

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

In most cases, you don't need to download the package archive at all.

simpleaffy

Very simple high level analysis of Affymetrix data

Bioconductor version: Release (2.14)

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 picr.man.ac.uk>

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

Installation

To install this package, start R and enter:

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

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("simpleaffy")

 

PDF R Script simpleaffy primer
PDF   Reference Manual
Text   README

Details

biocViews Annotation, DataImport, DifferentialExpression, Microarray, OneChannel, Preprocessing, QualityControl, ReportWriting, Software, Transcription, Visualization
Version 2.40.0
In Bioconductor since BioC 1.6 (R-2.1) or earlier
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
Suggests
System Requirements
URL http://www.bioconductor.org http://bioinformatics.picr.man.ac.uk/simpleaffy/
Depends On Me yaqcaffy
Imports Me affyQCReport, arrayMvout
Suggests Me AffyExpress, ArrayTools, ELBOW

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source simpleaffy_2.40.0.tar.gz
Windows Binary simpleaffy_2.40.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) simpleaffy_2.40.0.tgz
Mac OS X 10.9 (Mavericks) simpleaffy_2.40.0.tgz
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