public class JukesCantorDistanceMatrix extends DistanceMatrix
IdGroup.Utils
Constructor and Description |
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JukesCantorDistanceMatrix(Alignment alignment)
compute jukes-cantor corrected distances
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JukesCantorDistanceMatrix(DistanceMatrix dist)
compute jukes-cantor corrected distances
(assumes nucleotides as underlying data)
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JukesCantorDistanceMatrix(DistanceMatrix dist,
int numStates)
compute jukes-cantor corrected distances
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JukesCantorDistanceMatrix(SitePattern sitePattern)
compute jukes-cantor corrected distances
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absoluteDistance, addDistance, getClonedDistances, getClosestIndex, getClosestIndex, getDistance, getDistances, getIdCount, getIdentifier, getIdGroup, getSize, isSymmetric, meanDistance, printPHYLIP, setDistance, setDistances, setIdentifier, setIdGroup, squaredDistance, toString, whichIdNumber
public 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