A client for the OmniPath web service (https://www.omnipathdb.org) and many other resources. It also includes functions to transform and pretty print some of the downloaded data, functions to access a number of other resources such as BioPlex, ConsensusPathDB, EVEX, Gene Ontology, Guide to Pharmacology (IUPHAR/BPS), Harmonizome, HTRIdb, Human Phenotype Ontology, InWeb InBioMap, KEGG Pathway, Pathway Commons, Ramilowski et al. 2015, RegNetwork, ReMap, TF census, TRRUST and Vinayagam et al. 2011. Furthermore, OmnipathR features a close integration with the NicheNet method for ligand activity prediction from transcriptomics data, and its R implementation `nichenetr` (available only on github).
Package details |
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Bioconductor views | Annotation DataImport DataRepresentation GeneRegulation GeneSignaling GraphAndNetwork KEGG Network Pathways SingleCell Software SystemsBiology ThirdPartyClient Transcriptomics |
Maintainer | |
License | MIT + file LICENSE |
Version | 3.15.1 |
URL | https://r.omnipathdb.org/ |
Package repository | View on GitHub |
Installation |
Install the latest version of this package by entering the following in R:
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