recipe bioconductor-spia

Signaling Pathway Impact Analysis (SPIA) using combined evidence of pathway over-representation and unusual signaling perturbations

Homepage

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

License

file LICENSE

Recipe

/bioconductor-spia/meta.yaml

Links

biotools: spia, doi: 10.1093/bioinformatics/btn577

This package implements the Signaling Pathway Impact Analysis (SPIA) which uses the information form a list of differentially expressed genes and their log fold changes together with signaling pathways topology, in order to identify the pathways most relevant to the condition under the study.

package bioconductor-spia

Versions

2.42.0-0,  2.40.0-0,  2.38.0-0,  2.36.0-1,  2.34.0-0,  2.32.0-0,  2.30.0-0,  2.28.0-0

Depends

• bioconductor-kegggraph >=1.50.0,<1.51.0

• r-base >=4.0,<4.1.0a0

Required By

• bioconductor-enrichmentbrowser

Installation

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

conda install bioconductor-spia

and update with:

conda update bioconductor-spia

or use the docker container:

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

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