Uses of Class
org.forester.evoinference.matrix.distance.BasicSymmetricalDistanceMatrix
Packages that use BasicSymmetricalDistanceMatrix
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Uses of BasicSymmetricalDistanceMatrix in org.biojava.nbio.phylo
Methods in org.biojava.nbio.phylo that return BasicSymmetricalDistanceMatrixModifier and TypeMethodDescriptionForesterWrapper.cloneDM(BasicSymmetricalDistanceMatrix distM) Helper function to clone a forester symmetrical DistanceMatrix.Methods in org.biojava.nbio.phylo with parameters of type BasicSymmetricalDistanceMatrixModifier and TypeMethodDescriptionForesterWrapper.cloneDM(BasicSymmetricalDistanceMatrix distM) Helper function to clone a forester symmetrical DistanceMatrix.static PhylogenyTreeConstructor.distanceTree(BasicSymmetricalDistanceMatrix distM, TreeConstructorType constructor) -
Uses of BasicSymmetricalDistanceMatrix in org.forester.evoinference.distance
Methods in org.forester.evoinference.distance that return BasicSymmetricalDistanceMatrixModifier and TypeMethodDescriptionPairwiseDistanceCalculator.calcFractionalDissimilarities(Msa msa) PairwiseDistanceCalculator.calcKimuraDistances(Msa msa) PairwiseDistanceCalculator.calcKimuraDistances(Msa msa, double value_for_too_large_distance_for_kimura_formula) PairwiseDistanceCalculator.calcPoissonDistances(Msa msa) Methods in org.forester.evoinference.distance with parameters of type BasicSymmetricalDistanceMatrixModifier and TypeMethodDescriptionfinal PhylogenyNeighborJoining.execute(BasicSymmetricalDistanceMatrix distance) final PhylogenyNeighborJoiningF.execute(BasicSymmetricalDistanceMatrix distance) final PhylogenyNeighborJoiningR.execute(BasicSymmetricalDistanceMatrix distance) final voidSarray.initialize(BasicSymmetricalDistanceMatrix d) final voidMethod parameters in org.forester.evoinference.distance with type arguments of type BasicSymmetricalDistanceMatrixModifier and TypeMethodDescriptionNeighborJoining.execute(List<BasicSymmetricalDistanceMatrix> distances_list) NeighborJoiningF.execute(List<BasicSymmetricalDistanceMatrix> distances_list) NeighborJoiningR.execute(List<BasicSymmetricalDistanceMatrix> distances_list)