Encapsulate X!Tandem in R.

Bioconductor version: Release (2.12)

This package encapsulate X!Tandem in R. In its most basic functionality, this package allows to call tandem(input) from R, just as tandem.exe /path/to/input.xml would be used to run X!Tandem from the command line. Classes are also provided for taxonomy and parameters objects and methods are provided to convert xml files to R objects and vice versa. This package is the first step in an attempt to provide a reliable worflow for proteomics analysis in R.

Author: Frederic Fournier <frederic.fournier at crchuq.ulaval.ca>, Charles Joly Beauparlant <charles.joly-beauparlant at crchul.ulaval.ca>, Rene Paradis <rene.paradis at genome.ulaval.ca>, Arnaud Droit <arnaud.droit at crchuq.ulaval.ca>

Maintainer: Frederic Fournier <frederic.fournier at crchuq.ulaval.ca>

To install this package, start R and enter:


To cite this package in a publication, start R and enter:



PDF R Script The rTANDEM users guide
PDF   Reference Manual
Text   NEWS


biocViews MassSpectrometry, Proteomics, Software
Version 1.0.1
In Bioconductor since BioC 2.13 (R-2.18)
License Artistic-1.0 | file LICENSE
Depends XML, Rcpp, data.table (>= 1.8.8)
Imports methods
Suggests biomaRt
System Requirements rTANDEM uses expat and pthread libraries. See the README file for details.
Depends On Me
Imports Me
Suggests Me RforProteomics

Package Downloads

Package Source rTANDEM_1.0.1.tar.gz
Windows Binary rTANDEM_1.0.1.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) rTANDEM_1.0.1.tgz
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