OmnipathR
This package is for version 3.12 of Bioconductor; for the stable, up-to-date release version, see OmnipathR.
OmniPath web service client
Bioconductor version: 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("OmnipathR")):
Installation
To install this package, start R (version "4.0") and enter:
if (!require("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")| Building protein networks around drug-targets using OmnipathR | HTML | R Script |
| OmnipathR: utility functions to work with OmniPath in R | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
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) (4.5 years) |
| License | MIT + file LICENSE |
| Depends | R (>= 4.0), igraph, graphics, methods, utils, jsonlite |
| Imports | dplyr, stats, rlang, tidyr |
| System Requirements | |
| URL | https://saezlab.github.io/OmnipathR/ |
| Bug Reports | https://github.com/saezlab/OmnipathR/issues |
See More
| Suggests | dnet, gprofiler2, BiocStyle, testthat, knitr, rmarkdown, ggplot2, ggraph |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | 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 |
| Bioc Package Browser | https://code.bioconductor.org/browse/OmnipathR/ |
| Package Short Url | https://bioconductor.org/packages/OmnipathR/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.12 | Source Archive |