- Home
- Bioconductor 3.0
- Experiment Packages
- RforProteomics
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("RforProteomics")
In most cases, you don't need to download the package archive at all.
RforProteomics
|
This package is for version 3.0 of Bioconductor; for the stable, up-to-date release version, see RforProteomics.
Companion package to the 'Using R and Bioconductor for proteomics data analysis' publication
Bioconductor version: 3.0
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 cam.ac.uk>
Citation (from within R,
enter citation("RforProteomics")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("RforProteomics")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("RforProteomics")
| R Script | A current perspective on using R and Bioconductor for proteomics data analysis | |
| R Script | RforProteomics Bioc2013 poster | |
| R Script | Using R for proteomics data analysis | |
| HTML | R Script | Visualisation of proteomics data using R and Bioconductor |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | ExperimentData, MassSpectrometry, MassSpectrometryData, Proteomics |
| Version | 1.4.1 |
| License | Artistic-2.0 |
| Depends | MSnbase |
| Imports | R.utils, Biobase, rpx, biocViews, BiocInstaller, interactiveDisplay, shiny |
| LinkingTo | |
| Suggests | mzR, xcms, msdata, isobar, MALDIquant (>= 1.11), 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, knitr, BiocStyle, MSGFplus, MSGFgui, MSnID |
| SystemRequirements | |
| Enhances | cleaver |
| URL | http://lgatto.github.com/RforProteomics/ |
| Depends On Me | |
| Imports Me | |
| Suggests Me | proteoQC, qcmetrics |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Package Source | RforProteomics_1.4.1.tar.gz |
| Windows Binary | RforProteomics_1.4.1.zip |
| Mac OS X 10.6 (Snow Leopard) | RforProteomics_1.4.1.tgz |
| Mac OS X 10.9 (Mavericks) | RforProteomics_1.4.1.tgz |
| Subversion source | (username/password: readonly) |
| Package Short Url | http://bioconductor.org/packages/RforProteomics/ |
| Package Downloads Report | Download Stats |
Documentation »
Bioconductor
- Package vignettes and manuals.
- Workflows for learning and use.
- Course and conference material.
- Videos.
- Community resources and tutorials.
R / CRAN packages and documentation
Support »
Please read the posting guide. Post questions about Bioconductor to one of the following locations:
- Support site - for questions about Bioconductor packages
- Bioc-devel mailing list - for package developers
