recipe bioconductor-enrichmentbrowser

The EnrichmentBrowser package implements essential functionality for the enrichment analysis of gene expression data. The analysis combines the advantages of set-based and network-based enrichment analysis in order to derive high-confidence gene sets and biological pathways that are differentially regulated in the expression data under investigation. Besides, the package facilitates the visualization and exploration of such sets and pathways.

Homepage

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

License

Artistic-2.0

Recipe

/bioconductor-enrichmentbrowser/meta.yaml

package bioconductor-enrichmentbrowser

Versions

2.14.3-0, 2.12.0-0, 2.10.11-0

Depends

• bioconductor-annotationdbi >=1.46.0,<1.47.0

• bioconductor-biocfilecache >=1.8.0,<1.9.0

• bioconductor-biocgraph >=1.46.0,<1.47.0

• bioconductor-complexheatmap >=2.0.0,<2.1.0

• bioconductor-deseq2 >=1.24.0,<1.25.0

• bioconductor-edaseq >=2.18.0,<2.19.0

• bioconductor-edger >=3.26.0,<3.27.0

• bioconductor-geneplotter >=1.62.0,<1.63.0

• bioconductor-go.db >=3.8.0,<3.9.0

• bioconductor-graph >=1.62.0,<1.63.0

• bioconductor-graphite >=1.30.0,<1.31.0

• bioconductor-gseabase >=1.46.0,<1.47.0

• bioconductor-kegggraph >=1.44.0,<1.45.0

• bioconductor-keggrest >=1.24.0,<1.25.0

• bioconductor-limma >=3.40.0,<3.41.0

• bioconductor-pathview >=1.24.0,<1.25.0

• bioconductor-reportingtools >=2.24.0,<2.25.0

• bioconductor-rgraphviz >=2.28.0,<2.29.0

• bioconductor-s4vectors >=0.22.0,<0.23.0

• bioconductor-safe >=3.24.0,<3.25.0

• bioconductor-spia >=2.36.0,<2.37.0

• bioconductor-summarizedexperiment >=1.14.0,<1.15.0

• bioconductor-topgo >=2.36.0,<2.37.0

• r-base >=3.6,<3.7.0a0

• r-biocmanager

• r-hwriter

• r-mass

• r-rappdirs

Required By

• bioconductor-pathwaysplice

• bioconductor-gseabenchmarker

Installation

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

conda install bioconductor-enrichmentbrowser

and update with:

conda update bioconductor-enrichmentbrowser

or use the docker container:

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

(see bioconductor-enrichmentbrowser/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-enrichmentbrowser/README.html)