OmnipathR

DOI: 10.18129/B9.bioc.OmnipathR    

OmniPath web service client

Bioconductor version: Release (3.12)

A client for the OmniPath web service (https://www.omnipathdb.org). It also includes functions to transform and pretty print some of the downloaded data.

Author: Alberto Valdeolivas [aut] , Denes Turei [cre, aut] , Attila Gabor [aut]

Maintainer: Denes Turei <turei.denes at gmail.com>

Citation (from within R, enter citation("OmnipathR")):

Installation

To install this package, start R (version "4.0") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("OmnipathR")

For older versions of R, please refer to the appropriate Bioconductor release.

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("OmnipathR")

 

HTML R Script Building protein networks around drug-targets using OmnipathR
HTML R Script OmnipathR: utility functions to work with OmniPath in R
PDF   Reference Manual
Text   NEWS
Text   LICENSE

Details

biocViews DataImport, DataRepresentation, GeneRegulation, GeneSignaling, GraphAndNetwork, Network, Pathways, Software, SystemsBiology, ThirdPartyClient
Version 2.0.0
In Bioconductor since BioC 3.10 (R-3.6) (1 year)
License MIT + file LICENSE
Depends R (>= 4.0), igraph, graphics, methods, utils, jsonlite
Imports dplyr, stats, rlang, tidyr
LinkingTo
Suggests dnet, gprofiler2, BiocStyle, testthat, knitr, rmarkdown, ggplot2, ggraph
SystemRequirements
Enhances
URL https://saezlab.github.io/OmnipathR/
BugReports https://github.com/saezlab/OmnipathR/issues
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package OmnipathR_2.0.0.tar.gz
Windows Binary OmnipathR_2.0.0.zip
macOS 10.13 (High Sierra) OmnipathR_2.0.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/OmnipathR
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/OmnipathR
Package Short Url https://bioconductor.org/packages/OmnipathR/
Package Downloads Report Download Stats

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