jebl.evolution.trees
Class MRCACConsensusTreeBuilder

java.lang.Object
  jebl.evolution.trees.ConsensusTreeBuilder<RootedTree>
      jebl.evolution.trees.MRCACConsensusTreeBuilder

All Implemented Interfaces:

TreeBuilder<RootedTree>

public class MRCACConsensusTreeBuilder
extends ConsensusTreeBuilder<RootedTree>

Construct a consensus tree for a set of rooted trees. The construction is done via clustering. For any two clusters/clades, their distance is the height of their most recent common ancesstor (computed as an average over all trees). This seem natural as it connectes clades in reverse time order.

Author:

Joseph Heled

Nested Class Summary

Nested classes/interfaces inherited from class jebl.evolution.trees.ConsensusTreeBuilder

ConsensusTreeBuilder.Method

Field Summary

Fields inherited from class jebl.evolution.trees.ConsensusTreeBuilder

DEFAULT_SUPPORT_ATTRIBUTE_NAME, nExternalNodes, taxons

Constructor Summary

MRCACConsensusTreeBuilder(Tree[] trees, double supportThreshold)

MRCACConsensusTreeBuilder(Tree[] trees, double supportThreshold, String supportAttributeName, boolean asPercent)

Method Summary

RootedTree

build()

Methods inherited from class jebl.evolution.trees.ConsensusTreeBuilder

addProgressListener, fireSetProgress, getSupportAttributeName, isSupportAsPercent, removeProgressListener

Methods inherited from class java.lang.Object

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

Constructor Detail

MRCACConsensusTreeBuilder

public MRCACConsensusTreeBuilder(Tree[] trees,
                                 double supportThreshold)

MRCACConsensusTreeBuilder

public MRCACConsensusTreeBuilder(Tree[] trees,
                                 double supportThreshold,
                                 String supportAttributeName,
                                 boolean asPercent)

Method Detail

build

public RootedTree build()