recipe bioconductor-psygenet2r

psygenet2r - An R package for querying PsyGeNET and to perform comorbidity studies in psychiatric disorders

Homepage:

https://bioconductor.org/packages/3.18/bioc/html/psygenet2r.html

License:

MIT + file LICENSE

Recipe:

/bioconductor-psygenet2r/meta.yaml

Links:

biotools: psygenet2r, doi: 10.1093/bioinformatics/btv301

Package to retrieve data from PsyGeNET database (www.psygenet.org) and to perform comorbidity studies with PsyGeNET's and user's data.

package bioconductor-psygenet2r

versions:

1.34.0-0,  1.32.2-0,  1.30.0-0,  1.26.0-0,  1.24.0-0,  1.21.0-0,  1.20.0-0,  1.18.0-0,  1.16.0-1, 

1.34.0-0,  1.32.2-0,  1.30.0-0,  1.26.0-0,  1.24.0-0,  1.21.0-0,  1.20.0-0,  1.18.0-0,  1.16.0-1,  1.14.0-0,  1.12.0-0,  1.10.0-0

depends bioconductor-bgeedb:

>=2.28.0,<2.29.0

depends bioconductor-biobase:

>=2.62.0,<2.63.0

depends bioconductor-biomart:

>=2.58.0,<2.59.0

depends bioconductor-go.db:

>=3.18.0,<3.19.0

depends bioconductor-topgo:

>=2.54.0,<2.55.0

depends r-base:

>=4.3,<4.4.0a0

depends r-ggplot2:

depends r-igraph:

depends r-labeling:

depends r-rcurl:

depends r-reshape2:

depends r-stringr:

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-psygenet2r

and update with::

   mamba update bioconductor-psygenet2r

To create a new environment, run:

mamba create --name myenvname bioconductor-psygenet2r

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-psygenet2r:<tag>

(see `bioconductor-psygenet2r/tags`_ for valid values for ``<tag>``)

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