plotGraph: Plot a graph

In ccb-hms/BioPlexAnalysis: Applications and downstream analysis of BioPlex PPI data

Plot a graph

Description

Plotting utility for graphs

Usage

plotGraph(
  gr,
  node.label = "SYMBOL",
  node.data = NULL,
  edge.data = NULL,
  node.color = "firebrick",
  edge.color = "firebrick",
  edge.mode = c("directed", "undirected"),
  layout = c("fruchterman.reingold", "circle")
)

Arguments

gr	graph. An object of class graphNEL from the graph package.
node.label	character. A node data attribute that is used to label the nodes.
node.data	character. A node data attribute that is used to overlay on the nodes using different colors.
edge.data	character. An edge data attribute that is used to overlay on the edges using different line types.
node.color	character. Default color for the nodes. Is overwritten by node.data if not null.
edge.color	character. Default color for the edges.
edge.mode	character. Whether to display directed or undirected edges.
layout	character. Circular layout or network layout.

Value

A ggplot.

Examples

     library(BioPlex)
     corum.df <- getCorum("core")
     corum.glist <- corum2graphlist(corum.df)
     gr <- corum.glist[["CORUM107_TFIIH_transcription_factor_complex"]]

     plotGraph(gr, edge.mode = "undirected", 
               edge.color = "grey", layout = "circle")

ccb-hms/BioPlexAnalysis documentation built on Jan. 29, 2023, 6:55 p.m.