org.biojava3.phylo
Class CheckTreeAccuracy

java.lang.Object
  org.biojava3.phylo.CheckTreeAccuracy

public class CheckTreeAccuracy
extends java.lang.Object

Author:

Scooter

Constructor Summary

CheckTreeAccuracy()

Method Summary

static DistanceMatrix	copyMatrix(DistanceMatrix matrix)
PhylogenyNode	findCommonParent(PhylogenyNode node, java.util.Set<PhylogenyNode> path)
double	getNodeDistance(PhylogenyNode parentNode, PhylogenyNode childNode)
void	markPathToRoot(PhylogenyNode node, java.util.Set<PhylogenyNode> path)
void	process(Phylogeny tree, DistanceMatrix matrix)

Methods inherited from class java.lang.Object

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

Constructor Detail

CheckTreeAccuracy

public CheckTreeAccuracy()

Method Detail

copyMatrix

public static DistanceMatrix copyMatrix(DistanceMatrix matrix)

process

public void process(Phylogeny tree,
                    DistanceMatrix matrix)

getNodeDistance

public double getNodeDistance(PhylogenyNode parentNode,
                              PhylogenyNode childNode)

findCommonParent

public PhylogenyNode findCommonParent(PhylogenyNode node,
                                      java.util.Set<PhylogenyNode> path)

markPathToRoot

public void markPathToRoot(PhylogenyNode node,
                           java.util.Set<PhylogenyNode> path)