Return a minimal subgraph based on package name(s)

Find the subgraph induced by including specific packages. The induced subgraph is the graph that includes the named packages and all edges connecting them. This is useful for a developer, for example, to examine her packages and their intervening dependencies.

inducedSubgraphByPkgs(g, pkgs, pkg_color = "red")

Arguments

g

an igraph graph, typically created by buildPkgDependencyIgraph

pkgs

character() vector of packages to include. Package names not included in the graph are ignored.

pkg_color

character(1) giving color of named packages. Other packages in the graph that fall in connecting paths will be colored as the igraph default.

Examples

library(igraph)
g = buildPkgDependencyIgraph(buildPkgDependencyDataFrame())
#> 'getOption("repos")' replaces Bioconductor standard repositories, see
#> 'help("repositories", package = "BiocManager")' for details.
#> Replacement repositories:
#>     CRAN: https://cloud.r-project.org
g2 = inducedSubgraphByPkgs(g, pkgs=c('GenomicFeatures',
'TCGAbiolinksGUI', 'BiocGenerics', 'org.Hs.eg.db', 'minfi', 'limma'))
g2
#> IGRAPH ae4047e DN-- 5 3 -- 
#> + attr: name (v/c), color (v/c), edgetype (e/c)
#> + edges from ae4047e (vertex names):
#> [1] GenomicFeatures->BiocGenerics minfi          ->BiocGenerics
#> [3] minfi          ->limma       
V(g2)
#> + 5/5 vertices, named, from ae4047e:
#> [1] BiocGenerics    GenomicFeatures minfi           limma          
#> [5] org.Hs.eg.db   

plot(g2)