To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("CoGAPS")
In most cases, you don't need to download the package archive at all.
CoGAPS
|
This package is for version 2.8 of Bioconductor; for the stable, up-to-date release version, see CoGAPS.
Coordinated Gene Activity in Pattern Sets
Bioconductor version: 2.8
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>
Citation (from within R,
enter citation("CoGAPS")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("CoGAPS")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("CoGAPS")
| CoGAPSUsersManual.pdf | ||
| Reference Manual |
Details
| biocViews | Bioinformatics, GeneExpression, Microarray, Software |
| Version | 1.2.0 |
| In Bioconductor since | BioC 2.7 (R-2.12) (5.5 years) |
| License | GPL (== 2) |
| Depends | R (>= 2.9.0), rjags (>= 2.1.0), R.utils (>= 1.2.4) |
| Imports | graphics, grDevices, methods, stats, utils |
| LinkingTo | |
| Suggests | |
| SystemRequirements | GAPS-JAGS (==1.0.2) |
| Enhances | |
| URL | http://www.cancerbiostats.onc.jhmi.edu/cogaps.cfm |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | CoGAPS_1.2.0.tar.gz |
| Windows Binary | |
| Mac OS X 10.6 (Snow Leopard) | |
| Mac OS X 10.9 (Mavericks) | |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/CoGAPS/tree/release-2.8 |
| Package Short Url | http://bioconductor.org/packages/CoGAPS/ |
| Package Downloads Report | Download Stats |
Documentation »
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