DOI: 10.18129/B9.bioc.rTANDEM    

This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see rTANDEM.

Interfaces the tandem protein identification algorithm in R

Bioconductor version: 3.9

This package interfaces the tandem protein identification algorithm in R. Identification can be launched in the X!Tandem style, by using as sole parameter the path to a parameter file. But rTANDEM aslo provides extended syntax and functions to streamline launching analyses, as well as function to convert results, parameters and taxonomy to/from R. A related package, shinyTANDEM, provides visualization interface for result objects.

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>

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


To install this package, start R (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:



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


biocViews ImmunoOncology, MassSpectrometry, Proteomics, Software
Version 1.24.0
In Bioconductor since BioC 2.12 (R-3.0) (6.5 years)
License Artistic-1.0 | file LICENSE
Depends XML, Rcpp, data.table (>= 1.8.8)
Imports methods
LinkingTo Rcpp
Suggests biomaRt
SystemRequirements rTANDEM uses expat and pthread libraries. See the README file for details.
Depends On Me PGA, sapFinder, shinyTANDEM
Imports Me proteoQC
Suggests Me RforProteomics
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package rTANDEM_1.24.0.tar.gz
Windows Binary rTANDEM_1.24.0.zip
Mac OS X 10.11 (El Capitan) rTANDEM_1.24.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/rTANDEM
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/rTANDEM
Package Short Url https://bioconductor.org/packages/rTANDEM/
Package Downloads Report Download Stats

Documentation »


R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: