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 is the development version of MSnbase; for the stable release version, see MSnbase.

Base Functions and Classes for MS-based Proteomics

Bioconductor version: Development (3.3)

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, Richie Cotton, Martina Fisher 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 1.19.11
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(>= 1.3.1)
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, shiny
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, RMassBank
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_1.19.11.tar.gz
Windows Binary MSnbase_1.19.11.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) MSnbase_1.17.14.tgz
Mac OS X 10.9 (Mavericks) MSnbase_1.19.11.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/MSnbase
Package Short Url http://bioconductor.org/packages/MSnbase/
Package Downloads Report Download Stats

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