plot_network_at_age: Plot one ancestral network with module information at a given...

In maribraga/evolnets: Reconstruct Ancestral Networks Inferred In RevBayes

Plot one ancestral network with module information at a given time

Description

Plot one ancestral network with module information at a given time

Usage

plot_network_at_age(
  subtree,
  tip_data,
  tgraph,
  module_levels,
  colors = NULL,
  tree,
  age,
  weighted = TRUE,
  weight_range = c(0, 1),
  two_state = FALSE,
  node_size = NULL,
  level_names = c("Host", "Symbiont")
)

Arguments

subtree	a phylo object of the original tree sliced at a given time in the past.
tip_data	a data.frame containing the module information for each tip in the subtree.
tgraph	a tbl_graph containing the nodes and edges of the ancestral network and the module information for each node.
module_levels	Order in which the modules should be organized. Affects which color each module will be assigned.
colors	Color vector used to plot module information.
tree	The phylogeny of the symbiont clade (e.g. parasites, herbivores). Object of class phylo.
age	Age of the ancestral network to be plotted as the tittle.
weighted	Whether the network should have weighted edges.
weight_range	The range of weights conscidered for the width of the edges.
two_state	Whether the width of the edges should reflect the state (instead of the posterior probability).
node_size	Size of the nodes in every network. If NULL, the default size is plotted.
level_names	Optional string vector with two elements used by legend: name of the clade modeled as "host" and the name of the clade modeled as "symbiont".

Value

An assembly of plots, of class patchwork.

Examples

## Not run: 
plot_network_at_age(subtree, tip_data, tgraph, module_levels, colors, tree, age)

## End(Not run)

maribraga/evolnets documentation built on Feb. 3, 2025, 6:46 p.m.