Package pal.eval
Class SimpleUnconstrainedLikelihoodModel.InternalImpl
java.lang.Object
pal.eval.SimpleUnconstrainedLikelihoodModel.InternalImpl
- All Implemented Interfaces:
UnconstrainedLikelihoodModel.Internal
- Enclosing class:
- SimpleUnconstrainedLikelihoodModel
public static final class SimpleUnconstrainedLikelihoodModel.InternalImpl
extends Object
implements UnconstrainedLikelihoodModel.Internal
-
Constructor Summary
Constructors -
Method Summary
Modifier and TypeMethodDescriptioncalculateExtended(double distance, PatternInfo centerPattern, ConditionalProbabilityStore leftConditionalProbabilities, ConditionalProbabilityStore rightConditionalProbabilities) calculateFlat(PatternInfo centerPattern, ConditionalProbabilityStore leftConditionalProbabilities, ConditionalProbabilityStore rightConditionalProbabilities) calculate flat probability information (not extended over a branch).
-
Constructor Details
-
InternalImpl
-
-
Method Details
-
calculateFlat
public ConditionalProbabilityStore calculateFlat(PatternInfo centerPattern, ConditionalProbabilityStore leftConditionalProbabilities, ConditionalProbabilityStore rightConditionalProbabilities) Description copied from interface:UnconstrainedLikelihoodModel.Internalcalculate flat probability information (not extended over a branch).- Specified by:
calculateFlatin interfaceUnconstrainedLikelihoodModel.Internal- Parameters:
centerPattern- the pattern informationleftConditionalProbabilities- Implementations should be allowed to overwrite in certain casesrightConditionalProbabilities- Implementations should be allowed to overwrite in certain cases- Returns:
- true if results built from cached information
-
calculateExtended
public ConditionalProbabilityStore calculateExtended(double distance, PatternInfo centerPattern, ConditionalProbabilityStore leftConditionalProbabilities, ConditionalProbabilityStore rightConditionalProbabilities) - Specified by:
calculateExtendedin interfaceUnconstrainedLikelihoodModel.Internal- Parameters:
distance- The evolutionary distancecenterPattern- the pattern informationleftConditionalProbabilities- Implementations should be allowed to overwrite in certain casesrightConditionalProbabilities- Implementations should be allowed to overwrite in certain cases- Returns:
- resulting conditional probabilities
-