pal.distance
Class SUPGMADistanceMatrix

java.lang.Object
  |
  +--pal.distance.DistanceMatrix
        |
        +--pal.distance.SUPGMADistanceMatrix
All Implemented Interfaces:
IdGroup, java.io.Serializable

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.

See Also:
Serialized Form

Fields inherited from class pal.distance.DistanceMatrix
distance, idGroup, numSeqs
 
Constructor Summary
SUPGMADistanceMatrix(DistanceMatrix raw, TimeOrderCharacterData tocd, double rate)
          Uses date/time information and a constant rate to correct distance matrices.
 
Methods inherited from class pal.distance.DistanceMatrix
absoluteDistance, addDistance, getDistances, getIdCount, getIdentifier, getIdGroup, getSize, isSymmetric, meanDistance, printPHYLIP, setDistance, setIdentifier, 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,
                            double rate)
Uses date/time information and a constant rate to correct distance matrices.