CoGAPS

Coordinated Gene Activity in Pattern Sets

Bioconductor version: Release (2.14)

Coordinated Gene Activity in Pattern Sets (CoGAPS) infers biological processes which are active in individual gene sets from corresponding microarray measurements. CoGAPS achieves this inference by combining a MCMC matrix decomposition algorithm (GAPS) with a novel statistic inferring activity on gene sets.

Author: Elana J. Fertig

Maintainer: Elana J. Fertig <ejfertig at jhmi.edu>, Michael F. Ochs <mfo at jhu.edu>

To install this package, start R and enter:

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

To cite this package in a publication, start R and enter:

    citation("CoGAPS")

Documentation

PDF R Script GAPS/CoGAPS Users Manual
PDF   Reference Manual
Text   NEWS

Details

biocViews GeneExpression, Microarray, Software
Version 1.14.0
In Bioconductor since BioC 2.7 (R-2.12)
License GPL (== 2)
Depends R (>= 2.9.0), R.utils (>= 1.2.4), gplots (>= 2.8.0)
Imports graphics, grDevices, methods, stats, utils
Suggests
System Requirements GAPS-JAGS (==1.0.2)
URL http://sourceforge.net/p/cogapscpp/wiki/Home/
Depends On Me
Imports Me
Suggests Me

Package Downloads

Package Source CoGAPS_1.14.0.tar.gz
Windows Binary
Mac OS X 10.6 (Snow Leopard)
Mac OS X 10.9 (Mavericks)
Package Downloads Report Download Stats

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