recipe bioconductor-carnival

A CAusal Reasoning tool for Network Identification (from gene expression data) using Integer VALue programming

Homepage

https://bioconductor.org/packages/3.11/bioc/html/CARNIVAL.html

License

Apache License (== 3.0) | file LICENSE

Recipe

/bioconductor-carnival/meta.yaml

An upgraded causal reasoning tool from Melas et al in R with updated assignments of TFs' weights from PROGENy scores. Optimization parameters can be freely adjusted and multiple solutions can be obtained and aggregated.

package bioconductor-carnival

Versions

1.0.0-0

Depends

• bioconductor-annotationdbi >=1.50.0,<1.51.0

• bioconductor-category >=2.54.0,<2.55.0

• bioconductor-uniprot.ws >=2.28.0,<2.29.0

• bioconductor-viper >=1.22.0,<1.23.0

• r-base >=4.0,<4.1.0a0

• r-doparallel

• r-ggplot2

• r-igraph

• r-lpsolve

• r-readr

Required By

Installation

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

conda install bioconductor-carnival

and update with:

conda update bioconductor-carnival

or use the docker container:

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

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