edgeplot {ontophylo}

Plot edge profiles and contMap

Description

Wrapper function for plotting edge profiles and contmap from NHPP.

Usage

edgeplot(map_stat, prof_stat, plot.cont = TRUE)

Arguments

map_stat

contMap object. A contMap obtained using the 'make_contMap_KDE' function.

prof_stat

tibble. A tibble with the edgeplot information obtained using the 'edge_profiles4plotting' function.

plot.cont

logical. Whether to plot also the contMap or not.

Value

A plot with the edge profiles and contMap of the selected statistic (e.g. branch rates).

Author(s)

Diego Porto

Examples

data("hym_tree", "hym_kde")
# Get reference tree.
tree_discr <- discr_Simmap(hym_tree, res = 200)
# Get smoothing of normalized edge KDE data for mean rates.
Edge_KDE <- hym_kde$head
Edge_KDE_stat <- Edge_KDE$loess.lambda.mean
# Make contmap nhpp data.
map_stat <- make_contMap_KDE(tree_discr, Edge_KDE_stat)
# Make edgeplot nhpp data.
prof_stat <- edge_profiles4plotting(tree_discr, Edge_KDE_stat)
# Plot.
suppressWarnings(edgeplot(map_stat, prof_stat))