To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("isobar")

In most cases, you don't need to download the package archive at all.

isobar

 

   

Analysis and quantitation of isobarically tagged MSMS proteomics data

Bioconductor version: Release (3.4)

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. Features modules for integrating and validating PTM-centric datasets (isobar-PTM). More information on http://www.ms-isobar.org.

Author: Florian P Breitwieser <florian.bw at gmail.com> and Jacques Colinge <jacques.colinge at inserm.fr>, with contributions from Alexey Stukalov <stukalov at biochem.mpg.de>, Xavier Robin <xavier.robin at unige.ch> and Florent Gluck <florent.gluck at unige.ch>

Maintainer: Florian P Breitwieser <florian.bw at gmail.com>

Citation (from within R, enter citation("isobar")):

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("isobar")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("isobar")

 

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 R Script Usecases for isobar package
PDF   Reference Manual
Text   NEWS

Details

biocViews Bioinformatics, MassSpectrometry, MultipleComparisons, Proteomics, QualityControl, Software
Version 1.20.0
In Bioconductor since BioC 2.9 (R-2.14) (5 years)
License LGPL-2
Depends R (>= 2.10.0), Biobase, stats, methods
Imports distr, plyr, biomaRt, ggplot2
LinkingTo
Suggests MSnbase, OrgMassSpecR, XML, RJSONIO, Hmisc, gplots, RColorBrewer, gridExtra, limma, boot, DBI, MASS
SystemRequirements
Enhances
URL https://github.com/fbreitwieser/isobar
BugReports https://github.com/fbreitwieser/isobar/issues
Depends On Me
Imports Me
Suggests Me RforProteomics
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source isobar_1.20.0.tar.gz
Windows Binary isobar_1.20.0.zip
Mac OS X 10.9 (Mavericks) isobar_1.20.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/isobar/tree/release-3.4
Package Short Url http://bioconductor.org/packages/isobar/
Package Downloads Report Download Stats

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