graph

This is the development version of graph; for the stable release version, see graph.

graph: A package to handle graph data structures

Bioconductor version: Development (3.21)

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")):

Installation

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


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

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

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")

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

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	GraphAndNetwork, Software
Version	1.85.0
In Bioconductor since	BioC 1.6 (R-2.1) or earlier (> 19.5 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, EnrichmentBrowser, GOstats, GraphAT, GSEABase, hypergraph, keggorthology, MineICA, pathRender, Pigengene, RbcBook1, RBGL, RBioinf, RCyjs, Rgraphviz, ROntoTools, SRAdb, topGO, vtpnet, DLBCL, SNAData, yeastExpData, cyjShiny, dlsem, gridGraphviz, GUIProfiler, hasseDiagram, PairViz, PerfMeas, SubpathwayLNCE
Imports Me	AnnotationHubData, BgeeDB, BiocCheck, BiocFHIR, biocGraph, BiocPkgTools, biocViews, bnem, CAMERA, Category, categoryCompare, chimeraviz, ChIPpeakAnno, CHRONOS, consICA, CytoML, dce, DEGraph, DEsubs, EnrichDO, epiNEM, EventPointer, fgga, flowClust, flowWorkspace, gage, GeneNetworkBuilder, GenomicInteractionNodes, GraphAT, graphite, hyperdraw, KEGGgraph, MIRit, mnem, MOSClip, NCIgraph, netresponse, OncoSimulR, ontoProc, oposSOM, OrganismDbi, pathview, PhenStat, qpgraph, RCy3, RGraph2js, rsbml, Rtreemix, SGCP, SplicingGraphs, Streamer, VariantFiltering, BioPlex, abn, BayesNetBP, BCDAG, BiDAG, BNrich, ceg, CePa, classGraph, clustNet, CodeDepends, cogmapr, eulerian, ggm, gridDebug, HEMDAG, kpcalg, net4pg, netgsa, NetPreProc, pcalg, pcgen, rags2ridges, RANKS, RCPA, rsolr, rSpectral, SEMgraph, stablespec, topologyGSA, tpc, unifDAG, zenplots
Suggests Me	AnnotationDbi, DAPAR, DEGraph, EBcoexpress, ecolitk, gwascat, KEGGlincs, MLP, NetPathMiner, omXplore, rBiopaxParser, RCX, rTRM, S4Vectors, SPIA, VariantTools, arulesViz, bnlearn, bnstruct, bsub, ChoR, gbutils, GeneNet, gMCP, lava, loon, maGUI, psych, rEMM, rPref, sisal, textplot, tidygraph
Links To Me
Build Report	Build Report

Package Archives

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

Source Package	graph_1.85.0.tar.gz
Windows Binary (x86_64)	graph_1.85.0.zip (64-bit only)
macOS Binary (x86_64)	graph_1.85.0.tgz
macOS Binary (arm64)	graph_1.85.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/graph
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/graph
Bioc Package Browser	https://code.bioconductor.org/browse/graph/
Package Short Url	https://bioconductor.org/packages/graph/
Package Downloads Report	Download Stats