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Coordinated Gene Activity in Pattern Sets

Bioconductor version: Release (3.0)

Coordinated Gene Activity in Pattern Sets (CoGAPS) implements a Bayesian MCMC matrix factorization algorithm, GAPS, and links it to gene set statistic methods to infer biological process activity. It can be used to perform sparse matrix factorization on any data, and when this data represents biomolecules, to do gene set analysis.

Author: Elana J. Fertig, Michael F. Ochs

Maintainer: Elana J. Fertig <ejfertig at>, Michael F. Ochs <ochsm at>

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


biocViews GeneExpression, Microarray, Software
Version 2.0.0
In Bioconductor since BioC 2.7 (R-2.12)
License GPL (==2)
Depends R (>= 3.0.1), Rcpp (>= 0.11.2), RColorBrewer (>= 1.0.5), gplots (>= 2.8.0)
Imports graphics, grDevices, methods, stats, utils
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