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Companion package to the 'Using R and Bioconductor for proteomics data analysis' publication

Bioconductor version: Release (3.1)

This package contains code to illustrate the 'Using R and Bioconductor for proteomics data analysis' paper. Two vignettes describe the code and data needed to reproduce the examples and figures descibed in the paper and functionality for proteomics visualisation.

Author: Laurent Gatto [aut, cre], Thomas Lin Pedersen [ctb], Sebastian Gibb [ctb], Vlad Petyuk [ctb]

Maintainer: Laurent Gatto <lg390 at>

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


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PDF R Script A current perspective on using R and Bioconductor for proteomics data analysis
PDF R Script RforProteomics Bioc2013 poster
PDF R Script Using R for proteomics data analysis
HTML R Script Visualisation of proteomics data using R and Bioconductor
PDF   Reference Manual
Text   NEWS


biocViews ExperimentData, MassSpectrometryData
Version 1.6.0
License Artistic-2.0
Depends MSnbase
Imports R.utils, Biobase, rpx, biocViews, BiocInstaller, interactiveDisplay, shiny
Suggests knitr, rmarkdown, BiocStyle, mzR, xcms, msdata, isobar, MALDIquant (>= 1.11), MALDIquantForeign, readBrukerFlexData, rTANDEM, synapter, synapterdata, IPPD, Rdisop, OrgMassSpecR, BRAIN, rols, hpar, GO.db,, biomaRt, RColorBrewer, ggplot2, reshape2, xtable, lattice, mzID, pRoloc, pRolocdata, MSGFplus, MSGFgui, MSnID, msmsTests, msmsEDA, corrplot, Heatplus, gplots, VennDiagram
Enhances cleaver
Depends On Me
Imports Me
Suggests Me proteoQC, qcmetrics
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Package Source RforProteomics_1.6.0.tar.gz
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Mac OS X 10.9 (Mavericks)
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