OmnipathR
This package is for version 3.11 of Bioconductor; for the stable, up-to-date release version, see OmnipathR.
Import Omnipath network
Bioconductor version: 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 (!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 | R Script | |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | DataImport, DataRepresentation, GraphAndNetwork, Network, Pathways, Software, ThirdPartyClient |
| Version | 1.2.1 |
| In Bioconductor since | BioC 3.10 (R-3.6) (4.5 years) |
| License | MIT + file LICENSE |
| Depends | R (>= 3.6.0), igraph, graphics, methods, utils |
| Imports | dplyr, rlang |
| System Requirements | |
| URL | https://github.com/saezlab/OmnipathR |
See More
| Suggests | tidyr, 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_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 |
| 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 3.11 | Source Archive |