recipe bioconductor-msbackendmsp

Mass Spectrometry Data Backend for NIST msp Files






Mass spectrometry (MS) data backend supporting import and handling of MS/MS spectra from NIST MSP Format (msp) files. Import of data from files with different MSP *flavours* is supported. Objects from this package add support for MSP files to Bioconductor's Spectra package. This package is thus not supposed to be used without the Spectra package that provides a complete infrastructure for MS data handling.

package bioconductor-msbackendmsp

(downloads) docker_bioconductor-msbackendmsp



depends bioconductor-biocparallel:


depends bioconductor-iranges:


depends bioconductor-mscoreutils:


depends bioconductor-s4vectors:


depends bioconductor-spectra:


depends r-base:




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-msbackendmsp

and update with::

   mamba update bioconductor-msbackendmsp

To create a new environment, run:

mamba create --name myenvname bioconductor-msbackendmsp

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<tag>

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

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