recipe bioconductor-padog

This package implements a general purpose gene set analysis method called PADOG that downplays the importance of genes that apear often accross the sets of genes to be analyzed. The package provides also a benchmark for gene set analysis methods in terms of sensitivity and ranking using 24 public datasets from KEGGdzPathwaysGEO package.

Homepage

https://bioconductor.org/packages/3.9/bioc/html/PADOG.html

License

GPL (>= 2)

Recipe

/bioconductor-padog/meta.yaml

Links

biotools: padog, doi: 10.1186/1471-2105-13-136

package bioconductor-padog

(downloads) docker_bioconductor-padog

Versions

1.24.0-0, 1.22.0-0, 1.20.0-0

Depends bioconductor-annotationdbi

>=1.44.0,<1.45.0

Depends bioconductor-biobase

>=2.42.0,<2.43.0

Depends bioconductor-hgu133a.db

>=3.2.0,<3.3.0

Depends bioconductor-hgu133plus2.db

>=3.2.0,<3.3.0

Depends bioconductor-kegg.db

>=3.2.0,<3.3.0

Depends bioconductor-keggdzpathwaysgeo

>=1.20.0,<1.21.0

Depends bioconductor-limma

>=3.38.0,<3.39.0

Depends r-base

>=3.5.1,<3.5.2.0a0

Depends r-dorng

Depends r-foreach

Depends r-gsa

Depends r-nlme

Requirements

Installation

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

conda install bioconductor-padog

and update with:

conda update bioconductor-padog

or use the docker container:

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

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