ProcessSimSample: Process fossilized birth-death sample of lineages

In hisse: Hidden State Speciation and Extinction

Process fossilized birth-death sample of lineages

Description

Takes output from GetFossils and places extinct lineages in the tree and produces a properly formatted table of fossil samples from lineages that survive to the present (k fossils).

Usage

ProcessSimSample(phy, f)

Arguments

phy	a complete phylogeny that includes both extant and extinct lineages.
f	the table of sampled lineages under the fossilized birth-death process obtained from GetFossils.

Value

Returns an object that contains:

$phy	a tree of extant taxa and sampled extinct tips.
$k.samples	a table of k fossils sampled, formatted to be input into MiSSE, hisse, MuHiSSE.

hisse documentation built on Feb. 16, 2023, 10:26 p.m.