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## Uses of Interface
de.jstacs.models.mixture.gibbssampling.BurnInTest

Packages that use BurnInTest
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

Fields in de.jstacs.models.mixture declared as BurnInTest
`protected BurnInTest` | `AbstractMixtureModel.burnInTest` The `BurnInTest` that is used to stop the sampling.

Constructors in de.jstacs.models.mixture with parameters of type BurnInTest
`AbstractMixtureModel(int length, Model[] models, boolean[] optimizeModel, int dimension, int starts, boolean estimateComponentProbs, double[] componentHyperParams, double[] weights, AbstractMixtureModel.Algorithm algorithm, double alpha, TerminationCondition tc, AbstractMixtureModel.Parameterization parametrization, int initialIteration, int stationaryIteration, BurnInTest burnInTest)` Creates a new `AbstractMixtureModel`.
`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.
`MixtureModel(int length, Model[] models, int starts, boolean estimateComponentProbs, double[] componentHyperParams, double[] weights, AbstractMixtureModel.Algorithm algorithm, double alpha, TerminationCondition tc, AbstractMixtureModel.Parameterization parametrization, int initialIteration, int stationaryIteration, BurnInTest burnInTest)` Creates a new `MixtureModel`.
`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.
`StrandModel(Model model, int starts, boolean estimateComponentProbs, double[] componentHyperParams, double forwardStrandProb, AbstractMixtureModel.Algorithm algorithm, double alpha, TerminationCondition tc, AbstractMixtureModel.Parameterization parametrization, int initialIteration, int stationaryIteration, BurnInTest burnInTest)` Creates a new `StrandModel`.
`StrandModel(Model model, int starts, double[] componentHyperParams, int initialIteration, int stationaryIteration, BurnInTest burnInTest)` Creates an instance using Gibbs Sampling and sampling the component probabilities.
`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

Classes in de.jstacs.models.mixture.gibbssampling that implement BurnInTest
`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` Deprecated.
`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
`BurnInTest` | `BurnInTest.clone()` Return a deep copy of this object.

Uses of BurnInTest in de.jstacs.models.mixture.motif

Constructors in de.jstacs.models.mixture.motif with parameters of type BurnInTest
`HiddenMotifMixture(Model[] models, boolean[] optimzeArray, int components, int starts, boolean estimateComponentProbs, double[] componentHyperParams, double[] weights, PositionPrior posPrior, AbstractMixtureModel.Algorithm algorithm, double alpha, TerminationCondition tc, AbstractMixtureModel.Parameterization parametrization, int initialIteration, int stationaryIteration, BurnInTest burnInTest)` Creates a new `HiddenMotifMixture`.
`SingleHiddenMotifMixture(Model motif, Model bg, boolean trainOnlyMotifModel, int starts, double[] componentHyperParams, double[] weights, PositionPrior posPrior, AbstractMixtureModel.Algorithm algorithm, double alpha, TerminationCondition tc, AbstractMixtureModel.Parameterization parametrization, int initialIteration, int stationaryIteration, BurnInTest burnInTest)` Creates a new `SingleHiddenMotifMixture`.

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