SAtree.from.fossils: Transforms a tree and fossils dataframe to a combined SA...

Description Usage Arguments Value Examples

View source: R/SAtree.R

Description

Transforms a tree and fossils dataframe to a combined SA tree. Sampled ancestors are represented as tips on zero-length edges to maintain compatibility with the ape format. Tip labels are set to "species id"_"index", where the most recent tip of a given species receives index 1 and indices increase towards the past.

Usage

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Arguments

tree

Phylo object.

fossils

Fossils object.

Value

A tree integrating the fossils.

Examples

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# simulate tree
t = ape::rtree(6)

# simulate fossils
f = sim.fossils.poisson(rate = 2, tree = t)

# transform format
t2 = SAtree.from.fossils(t,f)
plot(t2)

FossilSim documentation built on April 6, 2021, 1:06 a.m.