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Packages that use LHCalculator.Factory | |
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pal.eval | Classes for evaluating evolutionary hypothesis (chi-square and likelihood criteria) and estimating model parameters. |
pal.treesearch |
Uses of LHCalculator.Factory in pal.eval |
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Methods in pal.eval that return LHCalculator.Factory | |
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static LHCalculator.Factory |
SimpleModelFastFourStateLHCalculator.getFactory()
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static LHCalculator.Factory |
SimpleLHCalculator.getFactory()
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static LHCalculator.Factory |
FastFourStateLHCalculator.getFactory()
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static LHCalculator.Factory |
SimpleModelFastFourStateLHCalculator.getFactory(LHCalculator.Factory fallbackFactory)
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static LHCalculator.Factory |
FastFourStateLHCalculator.getFactory(LHCalculator.Factory fallbackFactory)
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Methods in pal.eval with parameters of type LHCalculator.Factory | |
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static MolecularClockLikelihoodModel.Instance |
SimpleMolecularClockLikelihoodModel.createInstance(LHCalculator.Factory baseFactory,
SubstitutionModel model)
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static UnconstrainedLikelihoodModel.Instance |
SimpleUnconstrainedLikelihoodModel.createInstance(LHCalculator.Factory base,
SubstitutionModel model)
Create a SimpleUnconstrainedLikelihoodModel instance |
static MolecularClockLikelihoodModel.Instance |
SingleSplitMolecularClockLikelihoodModel.createInstance(RateMatrixGroup beforeSplitMatrices,
RateMatrixGroup afterSplitMatrics,
NeoParameterized acrossSplitParameters,
SingleSplitDistribution probabilityModel,
LHCalculator.Factory baseFactory,
double splitTime)
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static LHCalculator.Factory |
SimpleModelFastFourStateLHCalculator.getFactory(LHCalculator.Factory fallbackFactory)
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static LHCalculator.Factory |
FastFourStateLHCalculator.getFactory(LHCalculator.Factory fallbackFactory)
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Uses of LHCalculator.Factory in pal.treesearch |
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Constructors in pal.treesearch with parameters of type LHCalculator.Factory | |
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UnrootedMLSearcher(Alignment alignment,
SubstitutionModel model,
LHCalculator.Factory calcFactory)
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UnrootedMLSearcher(Node root,
Alignment alignment,
SubstitutionModel model,
LHCalculator.Factory calcFactory)
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