recipe bioconductor-msdata

Various Mass Spectrometry raw data example files

Homepage:

https://bioconductor.org/packages/3.18/data/experiment/html/msdata.html

License:

GPL (>= 2)

Recipe:

/bioconductor-msdata/meta.yaml

Ion Trap positive ionization mode data in mzML file format. Subset from 500-850 m/z and 1190-1310 seconds, incl. MS2 and MS3, intensity threshold 100.000. Extracts from FTICR Apex III, m/z 400-450. Subset of UPLC - Bruker micrOTOFq data, both mzML and mz5. LC-MSMS and MRM files from proteomics experiments. PSI mzIdentML example files for various search engines.

package bioconductor-msdata

(downloads) docker_bioconductor-msdata

versions:
0.42.0-0,  0.40.0-0,  0.37.0-0,  0.34.0-1,  0.34.0-0,  0.32.0-0,  0.30.0-0,  0.29.0-0,  0.28.0-0, 

0.42.0-0,  0.40.0-0,  0.37.0-0,  0.34.0-1,  0.34.0-0,  0.32.0-0,  0.30.0-0,  0.29.0-0,  0.28.0-0,  0.26.0-0,  0.24.1-0,  0.24.0-0,  0.22.0-0

depends bioconductor-data-packages:

>=20231203

depends curl:

depends r-base:

>=4.3,<4.4.0a0

requirements:

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-msdata

and update with::

   mamba update bioconductor-msdata

To create a new environment, run:

mamba create --name myenvname bioconductor-msdata

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-msdata:<tag>

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

Download stats

Link to this page

Render an install-with-bioconda 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-msdata/README.html)