Uses of Interface
pal.tree.ClusterTree.ClusteringMethod
Packages that use ClusterTree.ClusteringMethod
Package
Description
Classes for providing the data structure of
trees, for constructing and modifying trees, and for parameterizing
trees (e.g., clock constraint).
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Uses of ClusterTree.ClusteringMethod in pal.supgma
Methods in pal.supgma with parameters of type ClusterTree.ClusteringMethodModifier and TypeMethodDescriptionSUPGMABase.generateAlignmentBootstrappedSUPGMATree
(AlgorithmCallback callback, ClusterTree.ClusteringMethod cm, SUPGMABase.PopulationParameters pp, int numberOfReplicates, LMSSolver solver) SUPGMABase.PopulationParameters.generateSUPGMATree
(ClusterTree.ClusteringMethod cm) SUPGMABase.PopulationParameters.generateSUPGMATree
(AlgorithmCallback callback, ClusterTree.ClusteringMethod cm, DistanceMatrixGenerator replicateSource, int numberOfAlignmentBootstrapReplicates, LMSSolver solver) SUPGMABase.solve
(AlgorithmCallback callback, ClusterTree.ClusteringMethod cm, LMSSolver solver) Constructors in pal.supgma with parameters of type ClusterTree.ClusteringMethodModifierConstructorDescriptionSUPGMATree
(DistanceMatrix m, TimeOrderCharacterData tocd, double rate, ClusterTree.ClusteringMethod cm) constructor SUPGMA treeSUPGMATree
(DistanceMatrix m, TimeOrderCharacterData tocd, DeltaModel deltaModel, boolean allowNegatives, ClusterTree.ClusteringMethod cm) constructor SUPGMA tree -
Uses of ClusterTree.ClusteringMethod in pal.tree
Fields in pal.tree declared as ClusterTree.ClusteringMethodModifier and TypeFieldDescriptionstatic final ClusterTree.ClusteringMethod
ClusterTree.COMPLETE_LINKAGE
static final ClusterTree.ClusteringMethod
ClusterTree.SINGLE_LINKAGE
static final ClusterTree.ClusteringMethod
ClusterTree.UPGMA
static final ClusterTree.ClusteringMethod
ClusterTree.WPGMA
Constructors in pal.tree with parameters of type ClusterTree.ClusteringMethod