rWikiPathways

This package is for version 3.21 of Bioconductor; for the stable, up-to-date release version, see rWikiPathways.

rWikiPathways - R client library for the WikiPathways API

Bioconductor version: 3.21

Use this package to interface with the WikiPathways API. It provides programmatic access to WikiPathways content in multiple data and image formats, including official monthly release files and convenient GMT read/write functions.

Author: Egon Willighagen [aut, cre] ORCID iD ORCID: 0000-0001-7542-0286 , Alex Pico [aut] ORCID iD ORCID: 0000-0001-5706-2163

Maintainer: Egon Willighagen <egon.willighagen at gmail.com>

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

Installation

To install this package, start R (version "4.5") and enter:


if (!require("BiocManager", quietly = TRUE))
 install.packages("BiocManager")
BiocManager::install("rWikiPathways")

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("rWikiPathways")

1. Overview HTML R Script

2. rWikiPathways and BridgeDbR HTML R Script

3. rWikiPathways and RCy3 HTML R Script

4. Pathway Analysis HTML R Script

Reference Manual PDF

NEWS Text

LICENSE Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews GraphAndNetwork, Metabolomics, Network, Software, ThirdPartyClient, Visualization

Version 1.28.0

In Bioconductor since BioC 3.7 (R-3.5) (7.5 years)

License MIT + file LICENSE

Depends

Imports httr, utils, XML, rjson, data.table, RCurl, dplyr, tidyr, readr, stringr, purrr, lubridate

System Requirements

URL https://github.com/wikipathways/rwikipathways

Bug Reports https://github.com/wikipathways/rwikipathways/issues

Suggests testthat, BiocStyle, knitr, rmarkdown

Linking To

Enhances

Depends On Me

Imports Me famat, RVA

Suggests Me TRONCO

Links To Me

Build Report Build Report

Package Archives

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

Source Package rWikiPathways_1.28.0.tar.gz

Windows Binary (x86_64) rWikiPathways_1.28.0.zip

macOS Binary (x86_64) rWikiPathways_1.28.0.tgz

macOS Binary (arm64) rWikiPathways_1.28.0.tgz

Source Repository git clone https://git.bioconductor.org/packages/rWikiPathways

Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/rWikiPathways

Bioc Package Browser https://code.bioconductor.org/browse/rWikiPathways/

Package Short Url https://bioconductor.org/packages/rWikiPathways/

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