draw_network: Plots a network

In Rmomal/EMtree: Infers Direct Species Association Networks using Tree Averaging

Plots a network

Description

Plots a network

Usage

draw_network(
  adj_matrix,
  title = "",
  label_size = 4,
  curv = 0,
  width = 1,
  shade = FALSE,
  remove_isolated = FALSE,
  btw_rank = 2,
  layout = NULL,
  stored_layout = NULL,
  nodes_label = NULL,
  nodes_size = c(2, 5),
  pal_edges = NULL,
  pal_nodes = NULL,
  node_groups = NULL,
  edge_groups = NULL,
  legend = FALSE,
  leg.pos = "bottom",
  title.family = "sans",
  title.size = 12
)

Arguments

adj_matrix	graph adjacency matrix
title	graph title
label_size	size of labels
curv	edges curvature
width	maximum width for the edges
shade	if TRUE, shades the edges unlinked to nodes with high betweenness
remove_isolated	Removes isolated nodes if TRUE
btw_rank	betweenness rank +1 of highlighted nodes. If set to 1, none are highlighted.
layout	optional layout from 'ggraph' or 'ìgraph' package.
stored_layout	optional data.frame of point positions from a previous graph, possibly created using ggraph::create_layout()
nodes_label	optional labels for nodes.
nodes_size	size of nodes, possibility to specify a size per group
pal_edges	optional palette for edges
pal_nodes	optional palette for nodes
node_groups	optional vector separating the nodes into groups
edge_groups	optional matrix specifying groups of edges
legend	optional boolean for generating a legend when groups are provided
leg.pos	optional legend position ("bottom", "top", "right" or "left")
title.family	font family of the title
title.size	font size of the title

Value

• G the network as a ggplot2 object, with highlighted high betweenness nodes

• graph_data data needed for plotting the network

• legend ggplot2 information about the legend

Examples

set.seed(1)
adj_matrix= SimCluster(p=20,k=2,dens=0.5, r=10)
groups=sample(3,20, replace=TRUE)
draw_network(adj_matrix,"Cluster graph", layout="stress",
shade=TRUE, btw_rank=3)$G
draw_network(adj_matrix,"Cluster with groups of nodes",
layout="stress", shade=TRUE, btw_rank=3,
node_groups=groups, legend=TRUE,title.family="mono",title.size=12)$G

Rmomal/EMtree documentation built on Dec. 14, 2024, 8:16 a.m.