jebl.evolution.trees

Class MostProbableTopology

java.lang.Object

jebl.evolution.trees.MostProbableTopology

public class MostProbableTopology
extends java.lang.Object

Given a set of trees determine the most probable trees, i.e. the most frequent topologies. Set branch lengths / node heights from set conditional on topology.

Version:

$Id: MostProbableTopology.java 889 2008-02-27 01:13:21Z matt_kearse $

Author:

Joseph Heled

Constructor Summary

Constructors

Constructor and Description
MostProbableTopology(java.util.Collection<? extends Tree> trees)

Method Summary

Methods

Modifier and Type	Method and Description
java.util.List<Tree>	get(int max, double threshold) Get the most probable tree(s)

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

MostProbableTopology

public MostProbableTopology(java.util.Collection<? extends Tree> trees)

Parameters:

trees -

Method Detail

get

public java.util.List<Tree> get(int max,
                       double threshold)

Get the most probable tree(s)

Parameters:

max - At most this number of trees (max <= 0 is ignored)

threshold - (in [01]) return first K topologies whose total frequencey is greater that threshold.

Returns:

probable trees