OmnipathR

DOI: 10.18129/B9.bioc.OmnipathR    

Import Omnipath network

Bioconductor version: Release (3.11)

Import data from https://www.omnipathdb.org webservice. It also includes functions to transform and print this data.

Author: Attila Gabor, Denes Turei, Alberto Valdeolivas

Maintainer: Alberto Valdeolivas Urbelz <alvaldeolivas 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
PDF R Script OmnipathR: utility functions to work with Omnipath in R
PDF   Reference Manual
Text   NEWS
Text   LICENSE

Details

biocViews DataImport, DataRepresentation, GraphAndNetwork, Network, Pathways, Software, ThirdPartyClient
Version 1.2.1
In Bioconductor since BioC 3.10 (R-3.6) (1 year)
License MIT + file LICENSE
Depends R (>= 3.6.0), igraph, graphics, methods, utils
Imports dplyr, rlang
LinkingTo
Suggests tidyr, dnet, gprofiler2, BiocStyle, testthat, knitr, rmarkdown, ggplot2, ggraph
SystemRequirements
Enhances
URL https://github.com/saezlab/OmnipathR
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_1.2.1.tar.gz
Windows Binary OmnipathR_1.2.1.zip
macOS 10.13 (High Sierra) OmnipathR_1.2.1.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
Old Source Packages for BioC 3.11 Source Archive

Documentation »

Bioconductor

R / CRAN packages and documentation

Support »

Please read the posting guide. Post questions about Bioconductor to one of the following locations: