pal.eval
Class SingleSplitMolecularClockLikelihoodModel

java.lang.Object
  pal.eval.SingleSplitMolecularClockLikelihoodModel

All Implemented Interfaces:

MolecularClockLikelihoodModel

public class SingleSplitMolecularClockLikelihoodModel

extends java.lang.Object

implements MolecularClockLikelihoodModel

Nested Class Summary

Nested classes inherited from class pal.eval.MolecularClockLikelihoodModel

MolecularClockLikelihoodModel.External, MolecularClockLikelihoodModel.HeightConverter, MolecularClockLikelihoodModel.Instance, MolecularClockLikelihoodModel.Internal, MolecularClockLikelihoodModel.Leaf, MolecularClockLikelihoodModel.Simulator

Constructor Summary

SingleSplitMolecularClockLikelihoodModel()

Method Summary

static MolecularClockLikelihoodModel.Instance	createInstance(RateMatrixGroup beforeSplitMatrices, RateMatrixGroup afterSplitMatrics, NeoParameterized acrossSplitParameters, double splitTime)
static MolecularClockLikelihoodModel.Instance	createInstance(RateMatrixGroup beforeSplitMatrices, RateMatrixGroup afterSplitMatrics, NeoParameterized acrossSplitParameters, double[] classProbabilities, double splitTime)
static MolecularClockLikelihoodModel.Instance	createInstance(RateMatrixGroup beforeSplitMatrices, RateMatrixGroup afterSplitMatrics, NeoParameterized acrossSplitParameters, SingleSplitDistribution probabilityModel, double splitTime)
static MolecularClockLikelihoodModel.Instance	createInstance(RateMatrixGroup beforeSplitMatrices, RateMatrixGroup afterSplitMatrics, NeoParameterized acrossSplitParameters, SingleSplitDistribution probabilityModel, LHCalculator.Factory baseFactory, double splitTime)
static void	main(java.lang.String[] args)

Methods inherited from class java.lang.Object

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

Constructor Detail

SingleSplitMolecularClockLikelihoodModel

public SingleSplitMolecularClockLikelihoodModel()

Method Detail

createInstance

public static final MolecularClockLikelihoodModel.Instance createInstance(RateMatrixGroup beforeSplitMatrices,
                                                                          RateMatrixGroup afterSplitMatrics,
                                                                          NeoParameterized acrossSplitParameters,
                                                                          SingleSplitDistribution probabilityModel,
                                                                          LHCalculator.Factory baseFactory,
                                                                          double splitTime)

createInstance

public static final MolecularClockLikelihoodModel.Instance createInstance(RateMatrixGroup beforeSplitMatrices,
                                                                          RateMatrixGroup afterSplitMatrics,
                                                                          NeoParameterized acrossSplitParameters,
                                                                          SingleSplitDistribution probabilityModel,
                                                                          double splitTime)

createInstance

public static final MolecularClockLikelihoodModel.Instance createInstance(RateMatrixGroup beforeSplitMatrices,
                                                                          RateMatrixGroup afterSplitMatrics,
                                                                          NeoParameterized acrossSplitParameters,
                                                                          double splitTime)

createInstance

public static final MolecularClockLikelihoodModel.Instance createInstance(RateMatrixGroup beforeSplitMatrices,
                                                                          RateMatrixGroup afterSplitMatrics,
                                                                          NeoParameterized acrossSplitParameters,
                                                                          double[] classProbabilities,
                                                                          double splitTime)

main

public static final void main(java.lang.String[] args)