recipe bioconductor-degraph

DEGraph implements recent hypothesis testing methods which directly assess whether a particular gene network is differentially expressed between two conditions. This is to be contrasted with the more classical two-step approaches which first test individual genes, then test gene sets for enrichment in differentially expressed genes. These recent methods take into account the topology of the network to yield more powerful detection procedures. DEGraph provides methods to easily test all KEGG pathways for differential expression on any gene expression data set and tools to visualize the results.

Homepage

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

License

GPL-3

Recipe

/bioconductor-degraph/meta.yaml

Links

biotools: degraph, doi: 10.1214/11-AOAS528

package bioconductor-degraph

Versions

1.34.0-0, 1.32.0-0, 1.30.0-0

Depends

• bioconductor-graph >=1.60.0,<1.61.0

• bioconductor-kegggraph >=1.42.0,<1.43.0

• bioconductor-ncigraph >=1.30.0,<1.31.0

• bioconductor-rbgl >=1.58.0,<1.59.0

• bioconductor-rgraphviz >=2.26.0,<2.27.0

• r-base >=3.5.1,<3.5.2.0a0

• r-lattice

• r-mvtnorm

• r-r.methodss3

• r-r.utils

• r-rrcov

Required By

Installation

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

conda install bioconductor-degraph

and update with:

conda update bioconductor-degraph

or use the docker container:

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

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