recipe bioconductor-paxtoolsr

Access Pathways from Multiple Databases Through BioPAX and Pathway Commons

Homepage:

https://bioconductor.org/packages/3.16/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. Pathway Commons is a project by the Memorial Sloan-Kettering Cancer Center (MSKCC), Dana-Farber Cancer Institute (DFCI), and the University of Toronto. Pathway Commons databases include: BIND, BioGRID, CORUM, CTD, DIP, DrugBank, HPRD, HumanCyc, IntAct, KEGG, MirTarBase, Panther, PhosphoSitePlus, Reactome, RECON, TRANSFAC.

package bioconductor-paxtoolsr

Versions:

1.32.0-0,  1.28.0-0,  1.26.0-0,  1.24.0-1,  1.24.0-0,  1.20.0-0,  1.18.0-1,  1.18.0-0,  1.16.0-0

Depends:

• openjdk

• r-base >=4.2,<4.3.0a0

• r-httr

• r-igraph

• r-jsonlite

• r-plyr

• r-r.utils

• r-rappdirs

• r-readr

• r-rjava >=0.9-8

• r-rjson

• r-xml

Required By:

Installation

With an activated Bioconda channel (see 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>)

Download stats

Link to this page

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