Package pal.tree
Class NeighborJoiningTree
java.lang.Object
pal.tree.SimpleTree
pal.tree.NeighborJoiningTree
- All Implemented Interfaces:
Serializable,IdGroup,Report,Units,UnitsProvider,Tree
constructs a neighbor-joining tree from pairwise distances
Saitou, N., and Nei, M., (1987) The neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol. Biol. Evol, 4(4):406-425,
Saitou, N., and Nei, M., (1987) The neighbor-joining method: A new method for reconstructing phylogenetic trees. Mol. Biol. Evol, 4(4):406-425,
- Version:
- $Id: NeighborJoiningTree.java,v 1.12 2003/09/16 03:54:18 matt Exp $
- Author:
- Korbinian Strimmer, Alexei Drummond
- See Also:
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Nested Class Summary
Nested classes/interfaces inherited from interface pal.misc.IdGroup
IdGroup.UtilsNested classes/interfaces inherited from interface pal.tree.Tree
Tree.TreeBase -
Field Summary
Fields inherited from interface pal.misc.Units
DAYS, EXPECTED_SUBSTITUTIONS, GENERATIONS, MONTHS, SAMPLE, SHORT_UNIT_NAMES, UNIT_NAMES, UNKNOWN, YEARS -
Constructor Summary
Constructors -
Method Summary
Methods inherited from class pal.tree.SimpleTree
createNodeList, findNode, getAttribute, getCopy, getExternalNode, getExternalNodeCount, getIdCount, getIdentifier, getInternalNode, getInternalNodeCount, getRoot, getUnits, report, reroot, reroot, setAttribute, setIdentifier, setRoot, setUnits, toString, whichIdNumber
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Constructor Details
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NeighborJoiningTree
construct NJ tree- Parameters:
m- distance matrix
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