To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("mzR")
In most cases, you don't need to download the package archive at all.
This package is for version 3.3 of Bioconductor; for the stable, up-to-date release version, see mzR.
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 dkfz.de>, Steffen Neumann <sneumann at ipb-halle.de>, Laurent Gatto <lg390 at cam.ac.uk>, Qiang Kou <qkou at umail.iu.edu>
Citation (from within R,
enter citation("mzR")
):
To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("mzR")
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("mzR")
R Script | Accessin raw mass spectrometry and identification data | |
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 |
Enhances | |
URL | https://github.com/sneumann/mzR/ |
BugReports | https://github.com/sneumann/mzR/issues/ |
Depends On Me | MSGFgui, MSnbase, xcms |
Imports Me | Pbase, ProteomicsAnnotationHubData, RMassBank, SIMAT |
Suggests Me | AnnotationHub, qcmetrics, RforProteomics |
Build Report |
Follow Installation instructions to use this package in your R session.
Package Source | mzR_2.6.3.tar.gz |
Windows Binary | mzR_2.6.3.zip (32- & 64-bit) |
Mac OS X 10.9 (Mavericks) | mzR_2.6.3.tgz |
Subversion source | (username/password: readonly) |
Git source | https://github.com/Bioconductor-mirror/mzR/tree/release-3.3 |
Package Short Url | http://bioconductor.org/packages/mzR/ |
Package Downloads Report | Download Stats |
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