RpsiXML

DOI: 10.18129/B9.bioc.RpsiXML    

This package is deprecated. It will probably be removed from Bioconductor. Please refer to the package end-of-life guidelines for more information.

This package is for version 3.15 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see RpsiXML.

R interface to PSI-MI 2.5 files

Bioconductor version: 3.15

Queries, data structure and interface to visualization of interaction datasets. This package inplements the PSI-MI 2.5 standard and supports up to now 8 databases. Further databases supporting PSI-MI 2.5 standard will be added continuously.

Author: Jitao David Zhang [aut, cre, ctb] , Stefan Wiemann [ctb], Marc Carlson [ctb], Tony Chiang [ctb]

Maintainer: Jitao David Zhang <jitao_david.zhang at roche.com>

Installation

To install this package, start R (version "4.2") and enter:

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

BiocManager::install("RpsiXML")

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("RpsiXML")

 

PDF	R Script	Application Examples of RpsiXML package
PDF	R Script	Reading PSI-25 XML files
PDF		Reference Manual
Text		NEWS

Details

biocViews	Infrastructure, Proteomics, Software
Version	2.38.0
In Bioconductor since	BioC 2.3 (R-2.8) (14 years)
License	LGPL-3
Depends	methods, XML (>= 2.4.0), utils
Imports	annotate(>= 1.21.0), graph(>= 1.21.0), Biobase, RBGL(>= 1.17.0), hypergraph(>= 1.15.2), AnnotationDbi
LinkingTo
Suggests	org.Hs.eg.db, org.Mm.eg.db, org.Dm.eg.db, org.Rn.eg.db, org.Sc.sgd.db, Rgraphviz, ppiStats, ScISI, testthat
SystemRequirements
Enhances
URL	http://www.bioconductor.org
Depends On Me	ScISI
Imports Me	ScISI
Suggests Me
Links To Me
Build Report

Package Archives

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

Source Package	RpsiXML_2.38.0.tar.gz
Windows Binary	RpsiXML_2.38.0.zip
macOS Binary (x86_64)	RpsiXML_2.38.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/RpsiXML
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/RpsiXML
Package Short Url	https://bioconductor.org/packages/RpsiXML/
Package Downloads Report	Download Stats