MPAgenomics: Multi-Patient Analysis of Genomic Markers

MPAgenomics provides functions to preprocess and analyze genomic data. It provides wrappers from commonly used packages to streamline their repeated manipulation, offering an easy-to-use pipeline. The segmentation of successive multiple profiles is performed with an automatic choice of parameters involved in the wrapped packages. Considering multiple profiles in the same time, MPAgenomics wraps efficient penalized regression methods to select relevant markers associated with a given outcome.

Version: 1.1.0
Imports: R.utils, changepoint (≥ 1.1), glmnet, cghseg
Suggests: HDPenReg, CGHcall, aroma.affymetrix, aroma.cn, snowfall
Published: 2014-07-23
Author: Quentin Grimonprez with contributions from Guillemette Marot and Samuel Blanck. Some functions use code created by Sjoerd Vosse, Mark van de Wiel, Pierre Neuvial, Henrik Bengtsson.
Maintainer: Samuel Blanck <samuel.blanck at inria.fr>
License: GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
Copyright: Inria 2012-2014.
NeedsCompilation: no
Citation: MPAgenomics citation info
Materials: NEWS
CRAN checks: MPAgenomics results

Downloads:

Reference manual: MPAgenomics.pdf
Vignettes: Using MPAgenomics
Package source: MPAgenomics_1.1.0.tar.gz
Windows binaries: r-devel: MPAgenomics_1.1.0.zip, r-release: MPAgenomics_1.1.0.zip, r-oldrel: MPAgenomics_1.1.0.zip
OS X Snow Leopard binaries: r-release: MPAgenomics_1.1.0.tgz, r-oldrel: MPAgenomics_1.1.0.tgz
OS X Mavericks binaries: r-release: MPAgenomics_1.1.0.tgz