graph

This is the released version of graph; for the devel version, see graph.

All versions

3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17, 3.16, 3.15, 3.14, 3.13, 3.12, 3.11, 3.10, 3.9, 3.8, 3.7, 3.6, 3.5, 3.4, 3.3, 3.2, 3.1, 3.0, 2.14, 2.13, 2.12, 2.11, 2.10, 2.9, 2.8, 2.7, 2.6, 2.5

graph: A package to handle graph data structures

Bioconductor version: Release (3.23)

A package that implements some simple graph handling capabilities.

Author: R Gentleman [aut], Elizabeth Whalen [aut], W Huber [aut], S Falcon [aut], Jeff Gentry [aut], Paul Shannon [aut], Halimat C. Atanda [ctb] (Converted 'MultiGraphClass' and 'GraphClass' vignettes from Sweave to RMarkdown / HTML.), Paul Villafuerte [ctb] (Converted vignettes from Sweave to RMarkdown / HTML.), Aliyu Atiku Mustapha [ctb] (Converted 'Graph' vignette from Sweave to RMarkdown / HTML.), Bioconductor Package Maintainer [cre]

Maintainer: Bioconductor Package Maintainer <maintainer at bioconductor.org>

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

R Gentleman, Elizabeth Whalen, W Huber, S Falcon, Jeff Gentry, Paul Shannon. graph: graph: A package to handle graph data structures. doi:10.18129/B9.bioc.graph, R package version 1.90.0, https://bioconductor.org/packages/graph.

Generated from the package metadata; it may differ from the package's own citation.

Installation

To install this package, start R (version "4.6") and enter:

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

BiocManager::install("graph")

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("graph")

clusterGraph and distGraph	HTML	R Script
How to use the graph package	HTML	R Script
Attributes for Graph Objects	HTML	R Script
Graph Design	HTML	R Script
graphBAM and MultiGraph Classes	HTML	R Script
Reference Manual	PDF

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	GraphAndNetwork, Software
Version	1.90.0
In Bioconductor since	BioC 1.6 (R-2.1) or earlier (> 21.5 years)
License	Artistic-2.0
Depends	R (>= 2.10), methods, BiocGenerics (>= 0.13.11)
Imports	stats, stats4, utils
System Requirements
URL

Suggests	SparseM (>= 0.36), XML, RBGL, RUnit, cluster, BiocStyle, knitr
Linking To
Enhances	Rgraphviz
Depends On Me	apComplex, biocGraph, BioMVCClass, BioNet, BLMA, CellNOptR, clipper, CNORfeeder, cyjShiny, DLBCL, EnrichmentBrowser, flowMerge, GOstats, GraphAT, gridGraphviz, GSEABase, hypergraph, keggorthology, PairViz, pathRender, PerfMeas, Pigengene, qtlnet, RbcBook1, RBGL, RCyjs, Rgraphviz, ROntoTools, SNAData, SRAdb, topGO, vtpnet, yeastExpData
Imports Me	abn, AnnotationHubData, BayesNetBP, BCDAG, BgeeDB, BiDAG, BiocCheck, BiocFHIR, biocGraph, BiocPkgTools, biocViews, BioPlex, bnem, BNrich, CAMERA, Category, categoryCompare, CePa, chimeraviz, ChIPpeakAnno, CHRONOS, classGraph, clustNet, CodeDepends, cogmapr, consICA, CopulaSCR, CytoML, DEGraph, DEsubs, EnrichDO, epiNEM, EventPointer, fgga, flowClust, flowWorkspace, gage, GeneNetworkBuilder, GenomicInteractionNodes, ggm, GraphAT, graphite, gridDebug, hyperdraw, KEGGgraph, mirIntegrator, MIRit, mnem, MOSClip, MRPC, NCIgraph, net4pg, netgsa, NetPreProc, netresponse, OncoSimulR, ontoProc, openCyto, oposSOM, OrganismDbi, pathview, pcalg, pcgen, qpgraph, rags2ridges, RANKS, RCPA, RCy3, RGraph2js, rsbml, rsolr, rSpectral, scGraphVerse, SEMgraph, SGCP, SplicingGraphs, topologyGSA, tpc, unifDAG, VariantFiltering
Suggests Me	anansi, AnnotationDbi, arulesViz, bnlearn, bnstruct, bsub, caugi, DAPAR, DEGraph, EBcoexpress, ecolitk, gbutils, GeneNet, gMCP, gwascat, KEGGlincs, lava, loon, maGUI, MLP, netmeta, NetPathMiner, omXplore, PFCI, proftools, psych, rBiopaxParser, rCausalMGM, RCX, rEMM, rPref, rTRM, S4Vectors, sisal, SPIA, textplot, tidygraph, VariantTools, zenplots
Links To Me
Build Report	Build Report, r-universe

Package Archives

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

Source Package	graph_1.90.0.tar.gz
Windows Binary (x86_64)	graph_1.90.0.zip
macOS Binary (big-sur-x86_64)	graph_1.90.0.tgz
macOS Binary (sonoma-arm64)	graph_1.90.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/graph
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/graph
Package Short Url	https://bioconductor.org/packages/graph/
Package Downloads Report	Download Stats