recipe bioconductor-mzr

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

Homepage

https://bioconductor.org/packages/3.14/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

2.28.0-1,  2.28.0-0,  2.26.0-0,  2.24.1-0,  2.24.0-0,  2.22.0-0,  2.20.0-0,  2.18.0-1,  2.16.2-1, 

2.28.0-1,  2.28.0-0,  2.26.0-0,  2.24.1-0,  2.24.0-0,  2.22.0-0,  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 >=2.54.0,<2.55.0

• bioconductor-biocgenerics >=0.40.0,<0.41.0

• bioconductor-protgenerics >=1.26.0,<1.27.0

• bioconductor-rhdf5lib >=1.16.0,<1.17.0

• bioconductor-zlibbioc >=1.40.0,<1.41.0

• libblas >=3.8.0,<4.0a0

• libgcc-ng >=10.3.0

• liblapack >=3.8.0,<4.0a0

• libstdcxx-ng >=10.3.0

• r-base >=4.1,<4.2.0a0

• r-ncdf4

• r-rcpp >=0.10.1

Required By

• bioconductor-msnbase

• bioconductor-autotuner

• r-probmetab

• bioconductor-xcms

• r-recetox-aplcms

• bioconductor-msnid

• bioconductor-dialignr

• bioconductor-mspurity

• bioconductor-peakpanther

• r-george

• bioconductor-yamss

• bioconductor-msgfgui

• r-msqrob

• bioconductor-topdownr

• bioconductor-clumsid

• bioconductor-targetdecoy

• bioconductor-rmassbank

• bioconductor-proteomicsannotationhubdata

• bioconductor-adductomicsr

• bioconductor-simat

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>)

Download stats

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