Package pal.treesearch

Interface ConstraintModel.GroupManager

All Known Implementing Classes:
FixedBSRDTGlobalClockModel, FixedSRDTGlobalClockModel, GlobalClockModel, MRDTGlobalClockModel, SRDTGlobalClockModel
Enclosing interface:
ConstraintModel
public static interface ConstraintModel.GroupManager

  • Method Details

    • getLeafBaseHeight

      double getLeafBaseHeight(String leafLabel)

    • getBaseHeight

      double getBaseHeight(double originalExpectSubstitutionHeight)

    • getExpectedSubstitutionHeight

      double getExpectedSubstitutionHeight(double baseHeight)

    • getBaseHeightUnits

      int getBaseHeightUnits()

    • initialiseParameters

      void initialiseParameters(String[] leafNames, double[] leafHeights)

    • getAllGroupRelatedParameterAccess

      NeoParameterized getAllGroupRelatedParameterAccess()

    • getPrimaryGroupRelatedParameterAccess

      NeoParameterized getPrimaryGroupRelatedParameterAccess()

    • getSecondaryGroupRelatedParameterAccess

      NeoParameterized getSecondaryGroupRelatedParameterAccess()

    • createNewClockLeaf

      MolecularClockLikelihoodModel.Leaf createNewClockLeaf(PatternInfo pattern, int[] patternStateMatchup)

    • createNewClockExternal

      MolecularClockLikelihoodModel.External createNewClockExternal()

    • createNewClockInternal

      MolecularClockLikelihoodModel.Internal createNewClockInternal()