Uses of Interface
pal.tree.ClusterTree.ClusteringMethod

Packages that use ClusterTree.ClusteringMethod

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

Methods in pal.supgma with parameters of type ClusterTree.ClusteringMethod

Tree	SUPGMABase.generateAlignmentBootstrappedSUPGMATree(AlgorithmCallback callback, ClusterTree.ClusteringMethod cm, SUPGMABase.PopulationParameters pp, int numberOfReplicates, LMSSolver solver)
Tree	SUPGMABase.PopulationParameters.generateSUPGMATree(AlgorithmCallback callback, ClusterTree.ClusteringMethod cm, DistanceMatrixGenerator replicateSource, int numberOfAlignmentBootstrapReplicates, LMSSolver solver)
Tree	SUPGMABase.PopulationParameters.generateSUPGMATree(ClusterTree.ClusteringMethod cm)
Tree	SUPGMABase.solve(AlgorithmCallback callback, ClusterTree.ClusteringMethod cm, LMSSolver solver)

Constructors in pal.supgma with parameters of type ClusterTree.ClusteringMethod

SUPGMATree(DistanceMatrix m, TimeOrderCharacterData tocd, DeltaModel deltaModel, boolean allowNegatives, ClusterTree.ClusteringMethod cm)
constructor SUPGMA tree

SUPGMATree(DistanceMatrix m, TimeOrderCharacterData tocd, double rate, ClusterTree.ClusteringMethod cm)
constructor SUPGMA tree

Uses of ClusterTree.ClusteringMethod in pal.tree

Fields in pal.tree declared as ClusterTree.ClusteringMethod

static ClusterTree.ClusteringMethod	ClusterTree.COMPLETE_LINKAGE
static ClusterTree.ClusteringMethod	ClusterTree.SINGLE_LINKAGE
static ClusterTree.ClusteringMethod	ClusterTree.UPGMA
static ClusterTree.ClusteringMethod	ClusterTree.WPGMA

Constructors in pal.tree with parameters of type ClusterTree.ClusteringMethod

ClusterTree(DistanceMatrix dm, ClusterTree.ClusteringMethod cm)