att: Extraction of sorted sampling/coalescent times and...

In xiangfstats/GenieR: Inference of demographic history from phylogeny

Description

att extract sorted sampling/coalescent times and sampling/coalescent lineages from a phylogenetic tree.

Usage

att(phy, eps = 1e-06)

Arguments

phy	A phylogenetic tree, which is an object of class "phylo".
eps	Threshold parameter to separate coalescent and sampling event.

Value

A data.frame with columns t containing event times and A giving lineages.

Author(s)

Simon Frost ([e-mail])

References

Palacios JA and Minin VN. Integrated nested Laplace approximation for Bayesian nonparametric phylodynamics, in Proceedings of the Twenty-Eighth Conference on Uncertainty in Artificial Intelligence, 2012.

Examples

library(ape)
t1=rcoal(20)
att(t1)

xiangfstats/GenieR documentation built on May 4, 2019, 1:06 p.m.