recipe bioconductor-mzr

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

Homepage

https://bioconductor.org/packages/3.10/bioc/html/mzR.html

License

Artistic-2.0

Recipe

/bioconductor-mzr/meta.yaml

Links

biotools: mzr

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.

package bioconductor-mzr

Versions

2.20.0-0, 2.18.0-1, 2.16.2-1, 2.16.2-0, 2.16.0-0, 2.12.0-1, 2.10.0-0, 2.6.3-1, 2.6.3-0, 2.4.1-1

Depends

• bioconductor-biobase >=2.46.0,<2.47.0

• bioconductor-biocgenerics >=0.32.0,<0.33.0

• bioconductor-protgenerics >=1.18.0,<1.19.0

• bioconductor-rhdf5lib >=1.8.0,<1.9.0

• bioconductor-zlibbioc >=1.32.0,<1.33.0

• libgcc-ng >=7.3.0

• libstdcxx-ng >=7.3.0

• r-base >=3.6,<3.7.0a0

• r-ncdf4

• r-rcpp >=0.10.1

Required By

• bioconductor-topdownr

• bioconductor-autotuner

• bioconductor-msnid

• bioconductor-clumsid

• bioconductor-xcms

• bioconductor-rmassbank

• bioconductor-adductomicsr

• bioconductor-pbase

• bioconductor-msgfgui

• bioconductor-simat

• bioconductor-yamss

• r-george

• bioconductor-proteomicsannotationhubdata

• bioconductor-mspurity

• r-probmetab

• r-msqrob

• bioconductor-msnbase

• bioconductor-peakpanther

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-mzr

and update with:

conda update bioconductor-mzr

or use the docker container:

docker pull quay.io/biocontainers/bioconductor-mzr:<tag>

(see bioconductor-mzr/tags for valid values for <tag>)

Link to this page

Render an badge with the following MarkDown:

[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-mzr/README.html)