ProcessSimStrat: Process fossilized birth-death sample of lineages into...

In thej022214/hisse: Hidden State Speciation and Extinction

Process fossilized birth-death sample of lineages into stratigraphic intervals.

Description

Takes output from GetFossils and places extinct lineages in the tree and produces a properly formatted table of stratigraphic intervals.

Usage

ProcessSimStrat(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.
$strat.intervals	a table of stratigraphic intervals, formatted to be input into MiSSE, hisse, MuHiSSE.

thej022214/hisse documentation built on Sept. 20, 2023, 12:40 a.m.