protiq: Protein (identification and) quantification based on peptide evidence

Method for protein quantification based on identified and quantified peptides. protiq can be used for absolute and relative protein quantification. Input peptide abundance scores can come from various sources, including SRM transition areas and intensities or spectral counts derived from shotgun experiments. The package is still being extended to also include the model for protein identification, MIPGEM, presented in Gerster, S., Qeli, E., Ahrens, C.H. and Buehlmann, P. (2010). Protein and gene model inference based on statistical modeling in k-partite graphs. Proceedings of the National Academy of Sciences 107(27):12101-12106.

Version: 1.2
Depends: methods
Imports: graph, RBGL, mvtnorm
Suggests: gplots
Published: 2013-08-19
Author: Sarah Gerster and Peter Buehlmann
Maintainer: Sarah Gerster <sarah.gerster at isb-sib.ch>
License: GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
NeedsCompilation: no
CRAN checks: protiq results

Downloads:

Reference manual: protiq.pdf
Package source: protiq_1.2.tar.gz
Windows binaries: r-devel: protiq_1.2.zip, r-release: protiq_1.2.zip, r-oldrel: protiq_1.2.zip
OS X Snow Leopard binaries: r-release: protiq_1.2.tgz, r-oldrel: protiq_1.2.tgz
OS X Mavericks binaries: r-release: protiq_1.2.tgz
Old sources: protiq archive

Reverse dependencies:

Reverse imports: aLFQ