recipe bioconductor-regenrich

Gene regulator enrichment analysis

Homepage

https://bioconductor.org/packages/3.14/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

1.4.0-0,  1.2.0-0,  1.0.1-0,  1.0.0-1

Depends

• bioconductor-biocparallel >=1.28.0,<1.29.0

• bioconductor-biocset >=1.8.0,<1.9.0

• bioconductor-deseq2 >=1.34.0,<1.35.0

• bioconductor-dose >=3.20.0,<3.21.0

• bioconductor-fgsea >=1.20.0,<1.21.0

• bioconductor-limma >=3.50.0,<3.51.0

• bioconductor-s4vectors >=0.32.0,<0.33.0

• bioconductor-summarizedexperiment >=1.24.0,<1.25.0

• r-base >=4.1,<4.2.0a0

• 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>)

Download stats

Link to this page

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