org.forester.development
Class SupportCount

java.lang.Object
  extended by org.forester.development.SupportCount

public final class SupportCount
extends Object


Method Summary
static double compare(Phylogeny phylogeny, Phylogeny evaluator_phylogeny, boolean strip_evaluator_phylogeny, boolean update_support_in_phylogeny, boolean re_root)
           
static void count(Phylogeny phylogeny, Phylogeny[] evaluator_phylogenies, boolean strip_evaluator_phylogenies, boolean verbose)
           
static List<Phylogeny> count(Phylogeny phylogeny, Phylogeny[] evaluator_phylogenies, boolean strip_evaluator_phylogenies, double similarity_threshold, boolean verbose)
          This counts the support of topology phylogeny by the topologies in phylogenies.
 
Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
 

Method Detail

compare

public static double compare(Phylogeny phylogeny,
                             Phylogeny evaluator_phylogeny,
                             boolean strip_evaluator_phylogeny,
                             boolean update_support_in_phylogeny,
                             boolean re_root)

count

public static void count(Phylogeny phylogeny,
                         Phylogeny[] evaluator_phylogenies,
                         boolean strip_evaluator_phylogenies,
                         boolean verbose)

count

public static List<Phylogeny> count(Phylogeny phylogeny,
                                    Phylogeny[] evaluator_phylogenies,
                                    boolean strip_evaluator_phylogenies,
                                    double similarity_threshold,
                                    boolean verbose)
This counts the support of topology phylogeny by the topologies in phylogenies. If phylogenies contains topogies with names not present in phylogeny, strip_phylogenies must be set to true. phylogeny must not contain names not found in all phylogenies.

Parameters:
phylogeny - the topology to be evaluated
evaluator_phylogenies - the topologies used for evaluation
strip_evaluator_phylogenies - set to true if phylogenies contains topologies with names not present in phylogeny