calhoun.analysis.crf.features.supporting.phylogenetic
Class HKY85Model

java.lang.Object
  calhoun.analysis.crf.features.supporting.phylogenetic.NucleotideSubstitutionModel
      calhoun.analysis.crf.features.supporting.phylogenetic.HKY85Model

All Implemented Interfaces:

java.io.Serializable

public class HKY85Model
extends NucleotideSubstitutionModel

See Also:

Serialized Form

Constructor Summary

HKY85Model()

HKY85Model(double[] parms)

Method Summary

java.lang.String	getEvolutionaryModelName()
double[]	getParameters()
void	setParameters(double[] parms)
void	summarize()

Methods inherited from class calhoun.analysis.crf.features.supporting.phylogenetic.NucleotideSubstitutionModel

getRateMatrix, transitionMatrix

Methods inherited from class java.lang.Object

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

Constructor Detail

HKY85Model

public HKY85Model(double[] parms)

HKY85Model

public HKY85Model()

Method Detail

getEvolutionaryModelName

public java.lang.String getEvolutionaryModelName()

Specified by:

getEvolutionaryModelName in class NucleotideSubstitutionModel

getParameters

public double[] getParameters()

Specified by:

getParameters in class NucleotideSubstitutionModel

setParameters

public void setParameters(double[] parms)

Specified by:

setParameters in class NucleotideSubstitutionModel

summarize

public void summarize()

Specified by:

summarize in class NucleotideSubstitutionModel