org.forester.sdi
Class SDIse

java.lang.Object
  extended by org.forester.sdi.SDI
      extended by org.forester.sdi.SDIse

public class SDIse
extends SDI


Constructor Summary
SDIse(Phylogeny gene_tree, Phylogeny species_tree)
          Constructor which sets the gene tree and the species tree to be compared.
 
Method Summary
 
Methods inherited from class org.forester.sdi.SDI
computeMappingCostL, getDuplicationsSum, getGeneTree, getSpeciesTree, toString
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait
 

Constructor Detail

SDIse

public SDIse(Phylogeny gene_tree,
             Phylogeny species_tree)
Constructor which sets the gene tree and the species tree to be compared. species_tree is the species tree to which the gene tree gene_tree will be compared to - with method "infer(boolean)". Both Trees must be completely binary and rooted. The actual inference is accomplished with method "infer(boolean)". The mapping cost L can then be calculated with method "computeMappingCost()".

(Last modified: 01/11/01)

Parameters:
gene_tree - reference to a rooted binary gene Phylogeny to which assign duplication vs speciation, must have species names in the species name fields for all external nodes
species_tree - reference to a rooted binary species Phylogeny which might get stripped in the process, must have species names in the species name fields for all external nodes
See Also:
#infer(boolean), SDI.computeMappingCostL()