recipe bioconductor-mzid

An mzIdentML parser for R

Homepage:

https://bioconductor.org/packages/3.18/bioc/html/mzID.html

License:

GPL (>= 2)

Recipe:

/bioconductor-mzid/meta.yaml

Links:

biotools: mzid, doi: 10.1038/nmeth.3252

A parser for mzIdentML files implemented using the XML package. The parser tries to be general and able to handle all types of mzIdentML files with the drawback of having less 'pretty' output than a vendor specific parser. Please contact the maintainer with any problems and supply an mzIdentML file so the problems can be fixed quickly.

package bioconductor-mzid

versions:

1.44.0-0,  1.40.0-0,  1.38.0-0,  1.36.0-0,  1.32.0-0,  1.30.0-0,  1.28.0-1,  1.28.0-0,  1.26.0-0, 

1.44.0-0,  1.40.0-0,  1.38.0-0,  1.36.0-0,  1.32.0-0,  1.30.0-0,  1.28.0-1,  1.28.0-0,  1.26.0-0,  1.24.0-0,  1.22.0-1,  1.22.0-0,  1.20.1-0,  1.20.0-0,  1.18.0-0,  1.16.0-0,  1.14.0-0

depends bioconductor-protgenerics:

>=1.38.0,<1.39.0

depends r-base:

>=4.4,<4.5.0a0

depends r-doparallel:

depends r-foreach:

depends r-iterators:

depends r-plyr:

depends r-xml:

requirements:

additional platforms:

Installation

You need a conda-compatible package manager (currently either micromamba, mamba, or conda) and the Bioconda channel already activated (see set-up-channels).

While any of above package managers is fine, it is currently recommended to use either micromamba or mamba (see here for installation instructions). We will show all commands using mamba below, but the arguments are the same for the two others.

Given that you already have a conda environment in which you want to have this package, install with:

   mamba install bioconductor-mzid

and update with::

   mamba update bioconductor-mzid

To create a new environment, run:

mamba create --name myenvname bioconductor-mzid

with myenvname being a reasonable name for the environment (see e.g. the mamba docs for details and further options).

Alternatively, use the docker container:

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

(see `bioconductor-mzid/tags`_ for valid values for ``<tag>``)

Download stats

Link to this page

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