To install this package, start R and enter:


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


This is the development version of CoGAPS; for the stable release version, see CoGAPS.

Coordinated Gene Activity in Pattern Sets

Bioconductor version: Development (3.0)

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>, Michael F. Ochs <mfo at>

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


To install this package, start R and enter:



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



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


biocViews GeneExpression, Microarray, Software
Version 1.15.0
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
System Requirements GAPS-JAGS (==1.0.2)
Depends On Me
Imports Me
Suggests Me

Package Archives

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

Package Source CoGAPS_1.15.0.tar.gz
Windows Binary
Mac OS X 10.6 (Snow Leopard)
Mac OS X 10.9 (Mavericks)
Package Downloads Report Download Stats

Mailing Lists »

Post questions about Bioconductor packages to our mailing lists. Read the posting guide before posting!

Fred Hutchinson Cancer Research Center