To install this package, start R and enter:

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

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

MSnbase

This package is for version 3.1 of Bioconductor; for the stable, up-to-date release version, see MSnbase.

Base Functions and Classes for MS-based Proteomics

Bioconductor version: 3.1

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

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

Maintainer: Laurent Gatto <lg390 at cam.ac.uk>

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

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("MSnbase")
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

Details

biocViews DataImport, Infrastructure, MassSpectrometry, Proteomics, QualityControl, Software
Version 1.16.2
In Bioconductor since BioC 2.8 (R-2.13) (5 years)
License Artistic-2.0
Depends R (>= 3.1), methods, BiocGenerics(>= 0.7.1), Biobase(>= 2.15.2), mzR, BiocParallel, ProtGenerics
Imports plyr, IRanges, preprocessCore, vsn, grid, reshape2, stats4, affy, impute, pcaMethods, mzID(>= 1.5.2), MALDIquant (>= 1.12.0), digest, lattice, ggplot2, S4Vectors, Rcpp
LinkingTo Rcpp
Suggests testthat, zoo, knitr (>= 1.1.0), rols, Rdisop, pRoloc, pRolocdata(>= 1.0.7), msdata, roxygen2, rgl, BiocStyle, imputeLCMD, norm, gplots
SystemRequirements
Enhances
URL
BugReports https://github.com/lgatto/MSnbase/issues
Depends On Me msmsEDA, msmsTests, MSstats, ProCoNA, pRoloc, pRolocdata, pRolocGUI, proteoQC, RforProteomics, synapter
Imports Me MSnID, Pbase
Suggests Me BiocGenerics, isobar, qcmetrics, rpx
Build Report

Package Archives

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

Package Source MSnbase_1.16.2.tar.gz
Windows Binary MSnbase_1.16.2.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) MSnbase_1.16.2.tgz
Mac OS X 10.9 (Mavericks) MSnbase_1.16.2.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/MSnbase/tree/release-3.1
Package Short Url http://bioconductor.org/packages/MSnbase/
Package Downloads Report Download Stats

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