Ultrametrics.HAR: Hit-and-Run Sampler for the space of ultrametrics

In TML: Tropical Geometry Tools for Machine Learning

Hit-and-Run Sampler for the space of ultrametrics

Description

This sampler samples a point in the space of ultrametrics where each point represents an equidistant tree on n leaves

Usage

Ultrametrics.HAR(x0, n, I = 1, h = 1)

Arguments

x0	an equidistant tree defined as ultrametric
n	number of leaves for the equidistant tree
I	number of states in the Markov chain
h	height of phylogenetic tree

Value

point in the space of ultrametrics over n leaves

Author(s)

Ruriko Yoshida [e-mail]

References

Yoshida, Ruriko, Keiji Miura and David Barnhill (2022). Hit and Run Sampling from Tropically Convex Sets.

Examples

x0 <-Sim_Trees15[1,]
n<-10

Ultrametrics.HAR(x0, n, I = 50, h = 1)

TML documentation built on Sept. 11, 2024, 6:19 p.m.