recipe bioconductor-bgeedb

Annotation and gene expression data retrieval from Bgee database. TopAnat, an anatomical entities Enrichment Analysis tool for UBERON ontology

Homepage

https://bioconductor.org/packages/3.14/bioc/html/BgeeDB.html

License

GPL-3 + file LICENSE

Recipe

/bioconductor-bgeedb/meta.yaml

Links

biotools: bgeedb, doi: 10.12688/f1000research.9973.1

A package for the annotation and gene expression data download from Bgee database, and TopAnat analysis: GO-like enrichment of anatomical terms, mapped to genes by expression patterns.

package bioconductor-bgeedb

Versions

2.20.0-0,  2.18.0-0,  2.16.0-1,  2.16.0-0,  2.14.0-0,  2.12.0-0,  2.10.0-1,  2.8.0-0,  2.6.2-0, 

2.20.0-0,  2.18.0-0,  2.16.0-1,  2.16.0-0,  2.14.0-0,  2.12.0-0,  2.10.0-1,  2.8.0-0,  2.6.2-0,  2.4.0-0,  2.2.0-0

Depends

• bioconductor-biobase >=2.54.0,<2.55.0

• bioconductor-graph >=1.72.0,<1.73.0

• bioconductor-topgo >=2.46.0,<2.47.0

• r-base >=4.1,<4.2.0a0

• r-curl

• r-data.table

• r-digest

• r-dplyr

• r-r.utils

• r-rcurl

• r-rsqlite

• r-tidyr

Required By

• bioconductor-psygenet2r

• bioconductor-ritan

Installation

With an activated Bioconda channel (see 2. Set up channels), install with:

conda install bioconductor-bgeedb

and update with:

conda update bioconductor-bgeedb

or use the docker container:

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

(see bioconductor-bgeedb/tags for valid values for <tag>)

Download stats

Link to this page

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