CoGAPS

Coordinated Gene Activity in Pattern Sets

Bioconductor version: Release (2.7)

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 , Michael F. Ochs

To install this package, start R and enter:

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

Documentation

PDF R Script GAPS/CoGAPS Users Manual

Reference Manual

Details

biocViews GeneExpression, Microarray, Bioinformatics
Depends R, rjags, R.utils
Imports graphics, grDevices, methods, stats, utils
Suggests
System Requirements GAPS-JAGS (==1.0.2)
License GPL (== 2)
URL http://www.cancerbiostats.onc.jhmi.edu/cogaps.cfm
Depends On Me
Imports Me
Suggests Me
Version 1.0.0

Package Downloads

Package Source CoGAPS_1.0.0.tar.gz
Windows Binary
MacOS 10.5 (Leopard) binary
Package Downloads Report Download Stats

Workflows »

Common Bioconductor workflows include:

 

Mailing Lists »

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

Fred Hutchinson Cancer Research Center