treestats (version 1.70.5)

phylo_to_l: Function to generate an ltable from a phy object.

Description

This function is a C++ implementation of the function DDD::phylo2L. An L table summarises a phylogeny in a table with four columns, being: 1) time at which a species is born, 2) label of the parent of the species, where positive and negative numbers indicate whether the species belongs to the left or right crown lineage, 3) label of the daughter species itself (again positive or negative depending on left or right crown lineage), and the last column 4) indicates the time of extinction of a species, or -1 if the species is extant.

Usage

phylo_to_l(phy)

Value

ltable (see description)

Arguments

phy

phylo object

Examples

simulated_tree <- ape::rphylo(n = 4, birth = 1, death = 0)
ltable <- phylo_to_l(simulated_tree)
reconstructed_tree <- DDD::L2phylo(ltable)
old_par <- par()
par(mfrow = c(1, 2))
# trees should be more or less similar, although labels may not match, and
# rotations might cause (initial) visual mismatches
plot(simulated_tree)
plot(reconstructed_tree)
par(old_par)