public class ClusterTree extends SimpleTree
Modifier and Type | Class and Description |
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static interface |
ClusterTree.ClusteringMethod
An interface for describing Clustering methods
To be updated to cope with Ward's method and others...
|
Tree.TreeBase
IdGroup.Utils
Modifier and Type | Field and Description |
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static ClusterTree.ClusteringMethod |
COMPLETE_LINKAGE |
static ClusterTree.ClusteringMethod |
SINGLE_LINKAGE |
static ClusterTree.ClusteringMethod |
UPGMA |
static ClusterTree.ClusteringMethod |
WPGMA |
DAYS, EXPECTED_SUBSTITUTIONS, GENERATIONS, MONTHS, SAMPLE, SHORT_UNIT_NAMES, UNIT_NAMES, UNKNOWN, YEARS
Constructor and Description |
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ClusterTree(DistanceMatrix dm,
ClusterTree.ClusteringMethod cm) |
createNodeList, findNode, getAttribute, getCopy, getExternalNode, getExternalNodeCount, getIdCount, getIdentifier, getInternalNode, getInternalNodeCount, getRoot, getUnits, report, reroot, reroot, setAttribute, setIdentifier, setRoot, setUnits, toString, whichIdNumber
public static final ClusterTree.ClusteringMethod UPGMA
public static final ClusterTree.ClusteringMethod WPGMA
public static final ClusterTree.ClusteringMethod SINGLE_LINKAGE
public static final ClusterTree.ClusteringMethod COMPLETE_LINKAGE
public ClusterTree(DistanceMatrix dm, ClusterTree.ClusteringMethod cm)