public class ClusterTree extends SimpleTree
| Modifier and Type | Class and Description |
|---|---|
static interface |
ClusterTree.ClusteringMethod
An interface for describing Clustering methods
To be updated to cope with Ward's method and others...
|
Tree.TreeBaseIdGroup.Utils| Modifier and Type | Field and Description |
|---|---|
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 |
|---|
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, whichIdNumberpublic 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)