recipe bioconductor-paxtoolsr

PaxtoolsR: Access Pathways from Multiple Databases through BioPAX and Pathway Commons

Homepage

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

License

LGPL-3

Recipe

/bioconductor-paxtoolsr/meta.yaml

The package provides a set of R functions for interacting with BioPAX OWL files using Paxtools and the querying Pathway Commons (PC) molecular interaction database that are hosted by the Computational Biology Center at Memorial Sloan-Kettering Cancer Center (MSKCC). Pathway Commons databases include: BIND, BioGRID, CORUM, CTD, DIP, DrugBank, HPRD, HumanCyc, IntAct, KEGG, MirTarBase, Panther, PhosphoSitePlus, Reactome, RECON, TRANSFAC.

package bioconductor-paxtoolsr

Versions

1.20.0-0,  1.18.0-1,  1.18.0-0,  1.16.0-0

Depends

• openjdk

• r-base >=3.6,<3.7.0a0

• r-httr

• r-igraph

• r-jsonlite

• r-plyr

• r-r.utils

• r-readr

• r-rjava >=0.9-8

• r-rjson

• r-xml

Required By

Installation

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

conda install bioconductor-paxtoolsr

and update with:

conda update bioconductor-paxtoolsr

or use the docker container:

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

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