DOI: 10.18129/B9.bioc.RforProteomics    

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

Bioconductor version: Release (3.6)

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 described 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 cam.ac.uk>

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 Visualisation of proteomics data using R and Bioconductor
PDF   Reference Manual
Text   NEWS


biocViews ExperimentData, MassSpectrometryData, ReproducibleResearch
Version 1.15.0
License Artistic-2.0
Depends MSnbase
Imports R.utils, Biobase, rpx, biocViews, BiocInstaller, interactiveDisplay, shiny
Suggests knitr, rmarkdown, BiocStyle, mzR, xcms, msdata, isobar, MALDIquant (>= 1.12), MALDIquantForeign, readBrukerFlexData, rTANDEM, synapter, synapterdata, IPPD, Rdisop, OrgMassSpecR, BRAIN, rols, hpar, GO.db, org.Hs.eg.db, biomaRt, RColorBrewer, ggplot2, reshape2, xtable, lattice, mzID, pRoloc, pRolocdata, MSGFplus, MSGFgui, MSnID, msmsTests, msmsEDA, corrplot, Heatplus, gplots, VennDiagram, genefilter
Enhances cleaver
URL http://lgatto.github.com/RforProteomics/
Depends On Me
Imports Me
Suggests Me MSstatsQC, proteoQC, qcmetrics
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Source Package RforProteomics_1.15.0.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan)
Source Repository git clone https://git.bioconductor.org/packages/RforProteomics
Package Short Url http://bioconductor.org/packages/RforProteomics/
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