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

if (FALSE) {
plot_network_at_age(subtree, tip_data, tgraph, module_levels, colors, tree, age)
}