java.io.Serializable, IdGrouppublic class JukesCantorDistanceMatrix extends DistanceMatrix
IdGroup.Utils| Constructor | Description |
|---|---|
JukesCantorDistanceMatrix(Alignment alignment) |
compute jukes-cantor corrected distances
|
JukesCantorDistanceMatrix(SitePattern sitePattern) |
compute jukes-cantor corrected distances
|
JukesCantorDistanceMatrix(DistanceMatrix dist) |
compute jukes-cantor corrected distances
(assumes nucleotides as underlying data)
|
JukesCantorDistanceMatrix(DistanceMatrix dist,
int numStates) |
compute jukes-cantor corrected distances
|
absoluteDistance, addDistance, getClonedDistances, getClosestIndex, getClosestIndex, getDistance, getDistances, getIdCount, getIdentifier, getIdGroup, getSize, isSymmetric, meanDistance, printPHYLIP, setDistance, setDistances, setIdentifier, setIdGroup, squaredDistance, toString, whichIdNumberpublic JukesCantorDistanceMatrix(DistanceMatrix dist)
dist - distance matrixpublic JukesCantorDistanceMatrix(DistanceMatrix dist, int numStates)
dist - distance matrixnumStates - number of states of underlying datapublic JukesCantorDistanceMatrix(Alignment alignment)
alignment - Alignmentpublic JukesCantorDistanceMatrix(SitePattern sitePattern)
sitePattern - SitePattern