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To install this package, start R and enter:
## try http if https is not available
source("https://bioconductor.org/biocLite.R")
biocLite("MSnbase")
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: 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 is not available
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")
| R Script | Base Functions and Classes for MS-based Proteomics | |
| R Script | MSnbase development | |
| R Script | MSnbase IO capabilities | |
| 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) (4.5 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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