Field Detail

• MIN_ALLOWED_BL_VALUE

  public static final double MIN_ALLOWED_BL_VALUE

  See Also:

  Constant Field Values

Constructor Detail

• BranchLengthBasedScoringMethod

  public BranchLengthBasedScoringMethod​()

Method Detail

• getDesciption

  public java.lang.String getDesciption​()

  Description copied from interface: ScoringMethodForExternalNode
  This returns a short description of this scoring method

  Specified by:

  getDesciption in interface ScoringMethodForExternalNode

  Overrides:

  getDesciption in class BranchCountingBasedScoringMethod

  Returns:

  short description of this scoring method

• getNormalizationFactor

  public double getNormalizationFactor​(Phylogeny phylogeny)

  Description copied from interface: ScoringMethodForExternalNode
  This calculates a normalization factor, so that a normalized score of 1.0 means complete coverage.

  Specified by:

  getNormalizationFactor in interface ScoringMethodForExternalNode

  Overrides:

  getNormalizationFactor in class BranchCountingBasedScoringMethod

  Parameters:

  phylogeny - Phylogeny containing the external nodes to score

  Returns:

  normalization factor