parser for netCDF, mzXML, mzData and mzML files (mass spectrometry data)

Bioconductor version: 2.9

mzR provides a unified API to the common file formats and parsers available for mass spectrometry data. It comes with a wrapper for the ISB random access parser for mass spectrometry mzXML, mzData and mzML files. The package contains the original code written by the ISB, and a subset of the proteowizard library for mzML. The netCDF reading code has previously been used in XCMS.

Author: Bernd Fischer, Steffen Neumann, Laurent Gatto

Maintainer: Bernd Fischer <bernd.fischer at>, Steffen Neumann <sneumann at>, Laurent Gatto <lg390 at>

To install this package, start R and enter:


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



PDF R Script mzR, Ramp, mzXML, mzData, mzML
PDF   Reference Manual


biocViews Infrastructure, Bioinformatics, DataImport, Proteomics, Metabolomics, MassSpectrometry
Depends Rcpp (>= 0.9.4), methods
Imports Biobase
Suggests msdata, RUnit, faahKO
System Requirements GNU make, NetCDF, zlib
License Artistic-2.0
Depends On Me MSnbase
Imports Me
Suggests Me
Version 1.0.2
Since Bioconductor 2.9 (R-2.14)

Package Downloads

Package Source mzR_1.0.2.tar.gz
Windows Binary (32- & 64-bit)
MacOS 10.5 (Leopard) binary mzR_1.0.2.tgz
Package Downloads Report Download Stats

Workflows »

Common Bioconductor workflows include:


Mailing Lists »

Post questions about Bioconductor packages to our mailing lists. Read the posting guide before posting!

Fred Hutchinson Cancer Research Center