BranchCountingBasedScoringMethod
, BranchLengthBasedScoringMethod
, LogBranchLengthBasedScoringMethod
public interface ScoringMethodForExternalNode
Modifier and Type | Method | Description |
---|---|---|
void |
calculateScoreForExternalNode(java.util.SortedMap<PhylogenyNode,java.lang.Double> external_node_scores,
Phylogeny phylogeny,
PhylogenyNode external_node,
CoverageCalculationOptions options) |
This calculates the coverage score for one external node.
|
java.lang.String |
getDesciption() |
This returns a short description of this scoring method
|
double |
getNormalizationFactor(Phylogeny phylogeny) |
This calculates a normalization factor, so that a normalized score of 1.0
means complete coverage.
|
void calculateScoreForExternalNode(java.util.SortedMap<PhylogenyNode,java.lang.Double> external_node_scores, Phylogeny phylogeny, PhylogenyNode external_node, CoverageCalculationOptions options)
external_node_scores
- SortedMapphylogeny
- Phylogeny containing the external nodes to scoreexternal_node
- PhylogenyNod for which to calculate the scoreoptions
- CoverageCalculationOptionsannotate_phylogeny
- java.lang.String getDesciption()
double getNormalizationFactor(Phylogeny phylogeny)
phylogeny
- Phylogeny containing the external nodes to score