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Bioconductor - isobar

isobar

This is the released version of isobar; for the devel version, see isobar.

Analysis and quantitation of isobarically tagged MSMS proteomics data

Bioconductor version: Release (3.21)

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 (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("isobar")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

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

browseVignettes("isobar")

Details biocViews Bioinformatics, ImmunoOncology, MassSpectrometry, MultipleComparisons, Proteomics, QualityControl, Software Version 1.54.0 In Bioconductor since BioC 2.9 (R-2.14) (13.5 years) License LGPL-2 Depends R (>= 2.10.0), Biobase, stats, methods Imports distr, plyr, biomaRt, ggplot2 System Requirements URL https://github.com/fbreitwieser/isobar Bug Reports https://github.com/fbreitwieser/isobar/issues See More Suggests MSnbase, OrgMassSpecR, XML, RJSONIO, Hmisc, gplots, RColorBrewer, gridExtra, limma, boot, DBI, MASS Linking To Enhances Depends On Me Imports Me Suggests Me Links To Me Build Report Build Report Package Archives

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

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