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This package is for version 3.3 of Bioconductor; for the stable, up-to-date release version, see mzR.

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

Bioconductor version: 3.3

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 and mzIdentML. The netCDF reading code has previously been used in XCMS.

Author: Bernd Fischer, Steffen Neumann, Laurent Gatto, Qiang Kou

Maintainer: Bernd Fischer <b.fischer at>, Steffen Neumann <sneumann at>, Laurent Gatto <lg390 at>, Qiang Kou <qkou at>

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PDF R Script Accessin raw mass spectrometry and identification data
PDF   Reference Manual
Text   NEWS


biocViews DataImport, Infrastructure, MassSpectrometry, Metabolomics, Proteomics, Software
Version 2.6.3
In Bioconductor since BioC 2.9 (R-2.14) (5 years)
License Artistic-2.0
Depends Rcpp (>= 0.10.1), methods, utils
Imports Biobase, BiocGenerics(>= 0.13.6), ProtGenerics
LinkingTo Rcpp, zlibbioc
Suggests msdata(>= 0.3.5), RUnit, mzID, BiocStyle, knitr
SystemRequirements C++11, GNU make, NetCDF
Depends On Me MSGFgui, MSnbase, xcms
Imports Me Pbase, ProteomicsAnnotationHubData, RMassBank, SIMAT
Suggests Me AnnotationHub, qcmetrics, RforProteomics
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