To install this package, start R and enter:


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


MSnbase: Base Functions and Classes for MS-based Proteomics

Bioconductor version: 2.14

Basic plotting, data manipulation and processing of MS-based Proteomics data

Author: Laurent Gatto <lg390 at> with contributions from Guangchuang Yu, Samuel Wieczorek, Vasile-Cosmin Lazar, Vladislav Petyuk and Sebastian Gibb.

Maintainer: Laurent Gatto <lg390 at>

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


To install this package, start R and enter:



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



PDF R Script Base Functions and Classes for MS-based Proteomics
PDF R Script MSnbase development
PDF R Script MSnbase IO capabilities
PDF   Reference Manual
Text   NEWS


biocViews Infrastructure, MassSpectrometry, Proteomics, QualityControl, Software
Version 1.12.1
In Bioconductor since BioC 2.8 (R-2.13)
License Artistic-2.0
Depends R (>= 3.1), methods, BiocGenerics(>= 0.7.1), Biobase(>= 2.15.2), ggplot2, mzR
Imports plyr, IRanges, preprocessCore, vsn, grid, reshape2, stats4, affy, impute, pcaMethods, mzID(>= 1.1.5)
Suggests testthat, zoo, knitr (>= 1.1.0), rols, Rdisop, pRolocdata(>= 1.0.7), msdata
System Requirements
Depends On Me msmsEDA, msmsTests, MSstats, ProCoNA, pRoloc, pRolocdata, synapter
Imports Me
Suggests Me isobar, qcmetrics, RforProteomics, rpx

Package Archives

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

Package Source MSnbase_1.12.1.tar.gz
Windows Binary (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) MSnbase_1.12.1.tgz
Mac OS X 10.9 (Mavericks) MSnbase_1.12.1.tgz
Browse/checkout source (username/password: readonly)
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