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