isobar

Analysis and quantitation of isobarically tagged MSMS proteomics data

Bioconductor version: Release (2.12)

isobar provides methods for preprocessing, normalization, and report generation for the analysis of quantitative mass spectrometry proteomics data labeled with isobaric tags, such as iTRAQ and TMT.

Author: Florian P Breitwieser <fbreitwieser at cemm.oeaw.ac.at> and Jacques Colinge <jcolinge at cemm.oeaw.ac.at>, with contributions from Xavier Robin <xavier.robin at unige.ch> and Florent Gluck <florent.gluck at unige.ch>

Maintainer: Florian P Breitwieser <fbreitwieser at cemm.oeaw.ac.at>

To install this package, start R and enter:

    source("http://bioconductor.org/biocLite.R")
    biocLite("isobar")

To cite this package in a publication, start R and enter:

    citation("isobar")

Documentation

PDF R Script isobar for developers
PDF R Script isobar for quantification of PTM datasets
PDF R Script isobar package for iTRAQ and TMT protein quantification
PDF   Reference Manual
Text   README
Text   NEWS

Details

biocViews Bioinformatics, MassSpectrometry, MultipleComparisons, Proteomics, QualityControl, Software
Version 1.6.6
In Bioconductor since BioC 2.9 (R-2.14)
License LGPL-2
Depends R (>= 2.10.0), Biobase, stats, methods, plyr
Imports distr
Suggests MSnbase, OrgMassSpecR, XML, biomaRt, ggplot2, RJSONIO, Hmisc, gplots, RColorBrewer, gridExtra, limma, boot, distr
System Requirements
URL http://bioinformatics.cemm.oeaw.ac.at
Depends On Me
Imports Me
Suggests Me RforProteomics

Package Downloads

Package Source isobar_1.6.6.tar.gz
Windows Binary isobar_1.6.6.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) isobar_1.6.6.tgz
Package Downloads Report Download Stats

Mailing Lists »

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

Fred Hutchinson Cancer Research Center