DOI: 10.18129/B9.bioc.mzID    

This package is for version 3.8 of Bioconductor; for the stable, up-to-date release version, see mzID.

An mzIdentML parser for R

Bioconductor version: 3.8

A parser for mzIdentML files implemented using the XML package. The parser tries to be general and able to handle all types of mzIdentML files with the drawback of having less 'pretty' output than a vendor specific parser. Please contact the maintainer with any problems and supply an mzIdentML file so the problems can be fixed quickly.

Author: Thomas Lin Pedersen, Vladislav A Petyuk with contributions from Laurent Gatto and Sebastian Gibb.

Maintainer: Thomas Lin Pedersen <thomasp85 at>

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


To install this package, start R (version "3.5") 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 Using mzID
PDF   Reference Manual
Text   NEWS


biocViews DataImport, ImmunoOncology, MassSpectrometry, Proteomics, Software
Version 1.20.1
In Bioconductor since BioC 2.13 (R-3.0) (5.5 years)
License GPL (>= 2)
Depends methods
Imports XML, plyr, parallel, doParallel, foreach, iterators, ProtGenerics
Suggests knitr, testthat
Depends On Me proteomics
Imports Me MSGFgui, MSGFplus, MSnbase, MSnID, Pbase
Suggests Me mzR, RforProteomics
Links To Me
Build Report  

Package Archives

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

Source Package mzID_1.20.1.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan) mzID_1.20.1.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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