DolloParsimony

java.lang.Object

org.forester.evoinference.parsimony.DolloParsimony

public class DolloParsimony extends Object

Method Summary

Modifier and Type

Method

Description

static DolloParsimony

createInstance()

void

execute(Phylogeny p, CharacterStateMatrix<CharacterStateMatrix.BinaryStates> external_node_states_matrix)

int

getCost()

CharacterStateMatrix<CharacterStateMatrix.GainLossStates>

getGainLossMatrix()

CharacterStateMatrix<CharacterStateMatrix.BinaryStates>

getInternalStatesMatrix()

int

getTotalGains()

int

getTotalLosses()

int

getTotalUnchanged()

void

setReturnGainLossMatrix(boolean return_gain_loss)

void

setReturnInternalStates(boolean return_internal_states)

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Method Details
- execute
  
  public void execute(Phylogeny p, CharacterStateMatrix<CharacterStateMatrix.BinaryStates> external_node_states_matrix)
- getCost
  
  public int getCost()
- getGainLossMatrix
  
  public CharacterStateMatrix<CharacterStateMatrix.GainLossStates> getGainLossMatrix()
- getInternalStatesMatrix
  
  public CharacterStateMatrix<CharacterStateMatrix.BinaryStates> getInternalStatesMatrix()
- getTotalGains
  
  public int getTotalGains()
- getTotalLosses
  
  public int getTotalLosses()
- getTotalUnchanged
  
  public int getTotalUnchanged()
- setReturnGainLossMatrix
  
  public void setReturnGainLossMatrix(boolean return_gain_loss)
- setReturnInternalStates
  
  public void setReturnInternalStates(boolean return_internal_states)
- createInstance
  
  public static DolloParsimony createInstance()