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Packages that use BurnInTest | |
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de.jstacs.models.mixture | This package is the super package for any mixture model. |
de.jstacs.models.mixture.gibbssampling | This package contains many classes that can be used while a Gibbs sampling. |
de.jstacs.models.mixture.motif |
Uses of BurnInTest in de.jstacs.models.mixture |
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Fields in de.jstacs.models.mixture declared as BurnInTest | |
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protected BurnInTest |
AbstractMixtureModel.burnInTest
The BurnInTest that is used to stop the sampling. |
Constructors in de.jstacs.models.mixture with parameters of type BurnInTest | |
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AbstractMixtureModel(int length,
Model[] models,
boolean[] optimizeModel,
int dimension,
int starts,
boolean estimateComponentProbs,
double[] componentHyperParams,
double[] weights,
AbstractMixtureModel.Algorithm algorithm,
double alpha,
double eps,
AbstractMixtureModel.Parameterization parametrization,
int initialIteration,
int stationaryIteration,
BurnInTest burnInTest)
Creates a new AbstractMixtureModel . |
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MixtureModel(int length,
Model[] models,
double[] weights,
int starts,
int initialIteration,
int stationaryIteration,
BurnInTest burnInTest)
Creates an instance using Gibbs Sampling and fixed component probabilities. |
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MixtureModel(int length,
Model[] models,
int starts,
boolean estimateComponentProbs,
double[] componentHyperParams,
double[] weights,
AbstractMixtureModel.Algorithm algorithm,
double alpha,
double eps,
AbstractMixtureModel.Parameterization parametrization,
int initialIteration,
int stationaryIteration,
BurnInTest burnInTest)
Creates a new MixtureModel . |
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MixtureModel(int length,
Model[] models,
int starts,
double[] componentHyperParams,
int initialIteration,
int stationaryIteration,
BurnInTest burnInTest)
Creates an instance using Gibbs Sampling and sampling the component probabilities. |
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StrandModel(Model model,
int starts,
boolean estimateComponentProbs,
double[] componentHyperParams,
double forwardStrandProb,
AbstractMixtureModel.Algorithm algorithm,
double alpha,
double eps,
AbstractMixtureModel.Parameterization parametrization,
int initialIteration,
int stationaryIteration,
BurnInTest burnInTest)
Creates a new StrandModel . |
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StrandModel(Model model,
int starts,
double[] componentHyperParams,
int initialIteration,
int stationaryIteration,
BurnInTest burnInTest)
Creates an instance using Gibbs Sampling and sampling the component probabilities. |
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StrandModel(Model model,
int starts,
double forwardStrandProb,
int initialIteration,
int stationaryIteration,
BurnInTest burnInTest)
Creates an instance using Gibbs Sampling and fixed component probabilities. |
Uses of BurnInTest in de.jstacs.models.mixture.gibbssampling |
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Subclasses of BurnInTest in de.jstacs.models.mixture.gibbssampling | |
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class |
AbstractBurnInTest
This abstract class implements some of the methods of BurnInTest to
alleviate the implementation of efficient and new burn-in tests. |
class |
SimpleBurnInTest
This is a very simple test for the length of the burn-in phase. |
class |
VarianceRatioBurnInTest
In this class the Variance-Ratio method of Gelman and Rubin is implemented to test the length of the burn-in phase of a multi-chain Gibbs Sampling (number of chains >2). |
Methods in de.jstacs.models.mixture.gibbssampling that return BurnInTest | |
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BurnInTest |
BurnInTest.clone()
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Uses of BurnInTest in de.jstacs.models.mixture.motif |
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Constructors in de.jstacs.models.mixture.motif with parameters of type BurnInTest | |
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HiddenMotifMixture(Model[] models,
boolean[] optimzeArray,
int components,
int starts,
boolean estimateComponentProbs,
double[] componentHyperParams,
double[] weights,
PositionPrior posPrior,
AbstractMixtureModel.Algorithm algorithm,
double alpha,
double eps,
AbstractMixtureModel.Parameterization parametrization,
int initialIteration,
int stationaryIteration,
BurnInTest burnInTest)
Creates a new HiddenMotifMixture . |
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SingleHiddenMotifMixture(Model motif,
Model bg,
boolean trainOnlyMotifModel,
int starts,
double[] componentHyperParams,
double[] weights,
PositionPrior posPrior,
AbstractMixtureModel.Algorithm algorithm,
double alpha,
double eps,
AbstractMixtureModel.Parameterization parametrization,
int initialIteration,
int stationaryIteration,
BurnInTest burnInTest)
Creates a new SingleHiddenMotifMixture . |
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