RCX

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

R package implementing the Cytoscape Exchange (CX) format

Bioconductor version: 3.21

Create, handle, validate, visualize and convert networks in the Cytoscape exchange (CX) format to standard data types and objects. The package also provides conversion to and from objects of iGraph and graphNEL. The CX format is also used by the NDEx platform, a online commons for biological networks, and the network visualization software Cytocape.

Author: Florian Auer [aut, cre] ORCID iD ORCID: 0000-0002-5320-8900

Maintainer: Florian Auer <florian.auer at informatik.uni-augsburg.de>

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

Installation

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


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

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("RCX")

01. RCX - an R package implementing the Cytoscape Exchange (CX) format HTML R Script

02. Creating RCX from scratch HTML R Script

03. Extending the RCX Data Model HTML R Script

Appendix: The RCX and CX Data Model HTML R Script

Reference Manual PDF

NEWS Text

LICENSE Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews DataImport, Network, Pathways, Software

Version 1.12.1

In Bioconductor since BioC 3.15 (R-4.2) (3.5 years)

License MIT + file LICENSE

Depends R (>= 4.2.0)

Imports jsonlite, plyr, igraph, methods

System Requirements

URL https://github.com/frankkramer-lab/RCX

Bug Reports https://github.com/frankkramer-lab/RCX/issues

Suggests BiocStyle, testthat, knitr, rmarkdown, base64enc, graph

Linking To

Enhances

Depends On Me ndexr

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 RCX_1.12.1.tar.gz

Windows Binary (x86_64) RCX_1.12.0.zip

macOS Binary (x86_64) RCX_1.12.1.tgz

macOS Binary (arm64) RCX_1.12.1.tgz

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

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

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

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

Package Downloads Report Download Stats

Old Source Packages for BioC 3.21 Source Archive