recipe bioconductor-abaenrichment

Gene expression enrichment in human brain regions

Homepage

https://bioconductor.org/packages/3.10/bioc/html/ABAEnrichment.html

License

GPL (>= 2)

Recipe

/bioconductor-abaenrichment/meta.yaml

Links

biotools: abaenrichment

The package ABAEnrichment is designed to test for enrichment of user defined candidate genes in the set of expressed genes in different human brain regions. The core function ‘aba_enrich’ integrates the expression of the candidate gene set (averaged across donors) and the structural information of the brain using an ontology, both provided by the Allen Brain Atlas project. ‘aba_enrich’ interfaces the ontology enrichment software FUNC to perform the statistical analyses. Additional functions provided in this package like ‘get_expression’ and ‘plot_expression’ facilitate exploring the expression data, and besides the standard candidate vs. background gene set enrichment, also three additional tests are implemented, e.g. for cases when genes are ranked instead of divided into candidate and background.

package bioconductor-abaenrichment

(downloads) docker_bioconductor-abaenrichment

Versions

1.16.0-1, 1.14.0-1, 1.12.0-0, 1.10.0-0, 1.8.0-0

Depends
Required By

Installation

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

conda install bioconductor-abaenrichment

and update with:

conda update bioconductor-abaenrichment

or use the docker container:

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

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