pal.supgma
Class SUPGMADistanceMatrix

java.lang.Object
  extended by pal.distance.DistanceMatrix
      extended by pal.supgma.SUPGMADistanceMatrix
All Implemented Interfaces:
java.io.Serializable, IdGroup

public class SUPGMADistanceMatrix
extends DistanceMatrix

Corrects distances in a distance matrix such that all tips appear contemporaneous, given a time/date and rate information for the taxa.

Version:
$Id: SUPGMADistanceMatrix.java,v 1.1 2003/10/19 02:35:26 matt Exp $
Author:
Alexei Drummond, Matthew Goode
See Also:
Serialized Form

Nested Class Summary
 
Nested classes/interfaces inherited from interface pal.misc.IdGroup
IdGroup.Utils
 
Constructor Summary
SUPGMADistanceMatrix(DistanceMatrix raw, TimeOrderCharacterData tocd, DeltaModel deltaModel)
          Uses date/time information and a constant rate to correct distance matrices.
 
Method Summary
 
Methods inherited from class pal.distance.DistanceMatrix
absoluteDistance, addDistance, getClonedDistances, getClosestIndex, getClosestIndex, getDistance, getDistances, getIdCount, getIdentifier, getIdGroup, getSize, isSymmetric, meanDistance, printPHYLIP, setDistance, setDistances, setIdentifier, setIdGroup, squaredDistance, toString, whichIdNumber
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait
 

Constructor Detail

SUPGMADistanceMatrix

public SUPGMADistanceMatrix(DistanceMatrix raw,
                            TimeOrderCharacterData tocd,
                            DeltaModel deltaModel)
Uses date/time information and a constant rate to correct distance matrices.