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 3.2 of Bioconductor; for the stable, up-to-date release version, see MSnbase.

Base Functions and Classes for MS-based Proteomics

Bioconductor version: 3.2

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

Details

biocViews	DataImport, Infrastructure, MassSpectrometry, Proteomics, QualityControl, Software
Version	1.18.1
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), digest, lattice, ggplot2, S4Vectors, Rcpp
LinkingTo	Rcpp
Suggests	testthat, zoo, knitr (>= 1.1.0), rols, Rdisop, pRoloc, pRolocdata(>= 1.7.1), msdata, roxygen2, rgl, BiocStyle, imputeLCMD, norm, gplots
SystemRequirements
Enhances
URL	https://github.com/lgatto/MSnbase
BugReports	https://github.com/lgatto/MSnbase/issues
Depends On Me	DAPAR, msmsEDA, msmsTests, ProCoNA, pRoloc, pRolocdata, pRolocGUI, proteoQC, RforProteomics, synapter
Imports Me	MSnID, MSstats, Pbase, ProteomicsAnnotationHubData
Suggests Me	AnnotationHub, biobroom, BiocGenerics, isobar, qcmetrics, rpx
Build Report

Package Archives

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

Package Source	MSnbase_1.18.1.tar.gz
Windows Binary	MSnbase_1.18.1.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	MSnbase_1.18.0.tgz
Mac OS X 10.9 (Mavericks)	MSnbase_1.18.1.tgz
Subversion source	(username/password: readonly)
Git source	https://github.com/Bioconductor-mirror/MSnbase/tree/release-3.2
Package Short Url	http://bioconductor.org/packages/MSnbase/
Package Downloads Report	Download Stats

Documentation »

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