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java.lang.Object
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+--forester.tools.SDI
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+--forester.tools.SDIoe
| Constructor Summary | |
SDIoe(Tree gene_tree,
Tree species_tree)
Constructor. |
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| Method Summary | |
int |
computeMappingCost()
Computes the cost of mapping the gene tree gene_tree onto the species tree species_tree. |
int |
infer(boolean strip_species_tree)
Infers for each Node of gene_tree whether it represents a speciation or duplication event. |
| Methods inherited from class forester.tools.SDI |
main, stripTree |
| Methods inherited from class java.lang.Object |
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
| Constructor Detail |
public SDIoe(Tree gene_tree,
Tree species_tree)
throws java.lang.Exception
gene_tree - reference to a rooted binary gene Tree to which assign
duplication vs. speciationspecies_tree - reference to a rooted binary species Tree which might
be stripped in the process| Method Detail |
public int infer(boolean strip_species_tree)
throws java.lang.Exception
infer in class SDIstrip_species_tree - set to true if species are present in the
species tree which are not in the gene treepublic int computeMappingCost()
computeMappingCost in class SDI
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