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
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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")
| R Script | isobar for developers | |
| R Script | isobar for quantification of PTM datasets | |
| R Script | isobar package for iTRAQ and TMT protein quantification | |
| R Script | Usecases for isobar package | |
| 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) (5.5 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 |
Documentation »
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