plot_pathway_net: Plot a KEGG pathway network

In ReporterScore: Generalized Reporter Score-Based Enrichment Analysis for Omics Data

Plot a KEGG pathway network

Description

Plot a KEGG pathway network

Usage

plot_pathway_net(path_net_c, simplify = FALSE, plot_depth = FALSE, ...)

Arguments

path_net_c	A 'metanet' object representing the pathway network.
simplify	Logical, whether to simplify the network by removing multiple edges and loops. Default is 'FALSE'.
plot_depth	Logical, whether to plot the network as a tree layout. Default is 'FALSE'.
...	Additional arguments passed to 'MetaNet::c_net_plot'.

Value

A plot of the pathway network.

Examples

if (requireNamespace("MetaNet") && requireNamespace("ggkegg")) {
  tmp_dir <- tempdir()
  pcutils::download2("https://rest.kegg.jp/get/ko01521/kgml", file.path(tmp_dir, "ko01521.xml"))
  path_net_c <- c_net_from_pathway_xml(file.path(tmp_dir, "ko01521.xml"))
  plot_pathway_net(path_net_c)
  pathway_net_index(path_net_c)
}

ReporterScore documentation built on Feb. 20, 2026, 5:08 p.m.