recipe bioconductor-regenrich

Gene regulator enrichment analysis

Homepage

https://bioconductor.org/packages/3.12/bioc/html/RegEnrich.html

License

GPL (>= 2)

Recipe

/bioconductor-regenrich/meta.yaml

This package is a pipeline to identify the key gene regulators in a biological process, for example in cell differentiation and in cell development after stimulation. There are four major steps in this pipeline: (1) differential expression analysis; (2) regulator-target network inference; (3) enrichment analysis; and (4) regulators scoring and ranking.

package bioconductor-regenrich

Versions

1.0.0-1

Depends

• bioconductor-biocparallel >=1.24.0,<1.25.0

• bioconductor-biocset >=1.4.0,<1.5.0

• bioconductor-deseq2 >=1.30.0,<1.31.0

• bioconductor-dose >=3.16.0,<3.17.0

• bioconductor-fgsea >=1.16.0,<1.17.0

• bioconductor-limma >=3.46.0,<3.47.0

• bioconductor-s4vectors >=0.28.0,<0.29.0

• bioconductor-summarizedexperiment >=1.20.0,<1.21.0

• r-base >=4.0,<4.1.0a0

• r-dplyr

• r-ggplot2 >=2.2.0

• r-magrittr

• r-randomforest

• r-reshape2

• r-tibble

• r-wgcna

Required By

Installation

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

conda install bioconductor-regenrich

and update with:

conda update bioconductor-regenrich

or use the docker container:

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

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

Link to this page

Render an 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-regenrich/README.html)