Package pal.supgma
Interface SUPGMABase.PopulationParameters
- Enclosing class:
- SUPGMABase
public static interface SUPGMABase.PopulationParameters
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Method Summary
Modifier and TypeMethodDescriptiongenerateSUPGMATree
(AlgorithmCallback callback, ClusterTree.ClusteringMethod cm, DistanceMatrixGenerator replicateSource, int numberOfAlignmentBootstrapReplicates, LMSSolver solver) inferCI
(AlgorithmCallback callback, int numberOfReplicates, SimulatedAlignment.Factory alignmentFactory, SubstitutionModel evolutionaryModel, LMSSolver solver) boolean
Tree[]
simulateTrees
(int numberOfTreesToSimulate, AlgorithmCallback callback, LMSSolver solver)
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Method Details
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isCICompatible
boolean isCICompatible()- Returns:
- true if it possible to do Confidence Interval stuff
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inferCI
SUPGMABase.CISummary inferCI(AlgorithmCallback callback, int numberOfReplicates, SimulatedAlignment.Factory alignmentFactory, SubstitutionModel evolutionaryModel, LMSSolver solver) -
generateSUPGMATree
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generateSUPGMATree
Tree generateSUPGMATree(AlgorithmCallback callback, ClusterTree.ClusteringMethod cm, DistanceMatrixGenerator replicateSource, int numberOfAlignmentBootstrapReplicates, LMSSolver solver) -
simulateTrees
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simulateTree
Tree simulateTree() -
generateHTML
String generateHTML()
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