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## Uses of Class
de.jstacs.parameters.InstanceParameterSet

Packages that use InstanceParameterSet
de.jstacs | This package is the root package for the most and important packages.
de.jstacs.algorithms.optimization.termination | Provides classes for termination conditions that can be used in algorithms
de.jstacs.classifiers.differentiableSequenceScoreBased | Provides the classes for `Classifier`s that are based on `SequenceScore`s.
de.jstacs.classifiers.differentiableSequenceScoreBased.gendismix | Provides an implementation of a classifier that allows to train the parameters of a set of `DifferentiableStatisticalModel`s by a unified generative-discriminative learning principle
de.jstacs.classifiers.differentiableSequenceScoreBased.sampling | Provides the classes for `AbstractScoreBasedClassifier`s that are based on `SamplingDifferentiableStatisticalModel`s and that sample parameters using the Metropolis-Hastings algorithm.
de.jstacs.data | Provides classes for the representation of data.
de.jstacs.data.alphabets | Provides classes for the representation of discrete and continuous alphabets, including a `DNAAlphabet` for the most common case of DNA-sequences
de.jstacs.io | Provides classes for reading data from and writing to a file and storing a number of datatypes, including all primitives, arrays of primitives, and `Storable`s to an XML-representation
de.jstacs.parameters | This package provides classes for parameters that establish a general convention for the description of parameters as defined in the `Parameter`-interface.
de.jstacs.sampling | This package contains many classes that can be used while a sampling.
de.jstacs.sequenceScores.statisticalModels.differentiable.directedGraphicalModels | Provides `DifferentiableStatisticalModel`s that are directed graphical models.
de.jstacs.sequenceScores.statisticalModels.differentiable.directedGraphicalModels.structureLearning.measures | Provides the facilities to learn the structure of a `BayesianNetworkDiffSM`.
de.jstacs.sequenceScores.statisticalModels.differentiable.directedGraphicalModels.structureLearning.measures.btMeasures | Provides the facilities to learn the structure of a `BayesianNetworkDiffSM` as a Bayesian tree using a number of measures to define a rating of structures
de.jstacs.sequenceScores.statisticalModels.differentiable.directedGraphicalModels.structureLearning.measures.pmmMeasures | Provides the facilities to learn the structure of a `BayesianNetworkDiffSM` as a permuted Markov model using a number of measures to define a rating of structures
de.jstacs.sequenceScores.statisticalModels.trainable.discrete |
de.jstacs.sequenceScores.statisticalModels.trainable.discrete.homogeneous.parameters |
de.jstacs.sequenceScores.statisticalModels.trainable.discrete.inhomogeneous.parameters |
de.jstacs.utils | This package contains a bundle of useful classes and interfaces like ...

Uses of InstanceParameterSet in de.jstacs

Methods in de.jstacs that return InstanceParameterSet
`InstanceParameterSet<? extends InstantiableFromParameterSet>` | `InstantiableFromParameterSet.getCurrentParameterSet()` Returns the `InstanceParameterSet` that has been used to instantiate the current instance of the implementing class.

Uses of InstanceParameterSet in de.jstacs.algorithms.optimization.termination

Subclasses of InstanceParameterSet in de.jstacs.algorithms.optimization.termination
`static class` | `AbsoluteValueCondition.AbsoluteValueConditionParameterSet` Deprecated. This class implements the parameter set for a `AbsoluteValueCondition`.
`static class` | `AbstractTerminationCondition.AbstractTerminationConditionParameterSet` This class implements the super class of all parameter sets of instances from `AbstractTerminationCondition`.
`static class` | `CombinedCondition.CombinedConditionParameterSet` This class implements the parameter set for a `CombinedCondition`.
`static class` | `IterationCondition.IterationConditionParameterSet` This class implements the parameter set for a `IterationCondition`.
`static class` | `SmallDifferenceOfFunctionEvaluationsCondition.SmallDifferenceOfFunctionEvaluationsConditionParameterSet` This class implements the parameter set for a `SmallDifferenceOfFunctionEvaluationsCondition`.
`static class` | `SmallGradientConditon.SmallGradientConditonParameterSet` This class implements the parameter set for a `SmallStepCondition`.
`static class` | `SmallStepCondition.SmallStepConditionParameterSet` This class implements the parameter set for a `SmallStepCondition`.
`static class` | `TimeCondition.TimeConditionParameterSet` This class implements the parameter set for a `TimeCondition`.

Uses of InstanceParameterSet in de.jstacs.classifiers.differentiableSequenceScoreBased

Subclasses of InstanceParameterSet in de.jstacs.classifiers.differentiableSequenceScoreBased
`class` | `ScoreClassifierParameterSet` A set of `Parameter`s for any `ScoreClassifier`.

Uses of InstanceParameterSet in de.jstacs.classifiers.differentiableSequenceScoreBased.gendismix

Subclasses of InstanceParameterSet in de.jstacs.classifiers.differentiableSequenceScoreBased.gendismix
`class` | `GenDisMixClassifierParameterSet` This class contains the parameters for the `GenDisMixClassifier`.

Uses of InstanceParameterSet in de.jstacs.classifiers.differentiableSequenceScoreBased.sampling

Subclasses of InstanceParameterSet in de.jstacs.classifiers.differentiableSequenceScoreBased.sampling
`class` | `SamplingGenDisMixClassifierParameterSet` `ParameterSet` to instantiate a `SamplingGenDisMixClassifier`.
`class` | `SamplingScoreBasedClassifierParameterSet` `ParameterSet` to instantiate a `SamplingScoreBasedClassifier`.

Uses of InstanceParameterSet in de.jstacs.data

Subclasses of InstanceParameterSet in de.jstacs.data
`static class` | `AlphabetContainer.AbstractAlphabetContainerParameterSet<T extends AlphabetContainer>` This class is the super class of any `InstanceParameterSet` for `AlphabetContainer`.
`class` | `AlphabetContainerParameterSet` Class for the `AlphabetContainerParameterSet.SectionDefinedAlphabetParameterSet` of an `AlphabetContainer`.

Methods in de.jstacs.data that return types with arguments of type InstanceParameterSet
`LinkedList<InstanceParameterSet>` | `AlphabetContainer.AlphabetContainerType.getInstanceParameterSets()` This method returns a `LinkedList` of `InstanceParameterSet`s which can be used to create `Alphabet`s that can be used in a `AlphabetContainer` of the given `AlphabetContainer.AlphabetContainerType`.

Uses of InstanceParameterSet in de.jstacs.data.alphabets

Subclasses of InstanceParameterSet in de.jstacs.data.alphabets
`static class` | `Alphabet.AlphabetParameterSet<T extends Alphabet>` The super class for the `InstanceParameterSet` of any `Alphabet`.
`static class` | `ContinuousAlphabet.ContinuousAlphabetParameterSet` Class for the `ParameterSet` of a `ContinuousAlphabet`.
`static class` | `DiscreteAlphabet.DiscreteAlphabetParameterSet` Class for the `ParameterSet` of a `DiscreteAlphabet`.
`static class` | `DNAAlphabet.DNAAlphabetParameterSet` The parameter set for a `DNAAlphabet`.
`static class` | `DNAAlphabetContainer.DNAAlphabetContainerParameterSet` This class implements a singleton for the `ParameterSet` of a `DNAAlphabetContainer`.
`static class` | `GenericComplementableDiscreteAlphabet.GenericComplementableDiscreteAlphabetParameterSet` This class is used as container for the parameters of a `GenericComplementableDiscreteAlphabet`.
`static class` | `ProteinAlphabet.ProteinAlphabetParameterSet` The parameter set for a `ProteinAlphabet`.

Methods in de.jstacs.data.alphabets that return InstanceParameterSet
`abstract InstanceParameterSet<? extends Alphabet>` | `Alphabet.getCurrentParameterSet()`

Uses of InstanceParameterSet in de.jstacs.io

Methods in de.jstacs.io with parameters of type InstanceParameterSet
`static
`<T extends InstantiableFromParameterSet> T`
` | `ParameterSetParser.getInstanceFromParameterSet(InstanceParameterSet<T> pars)` Returns an instance of a subclass of `InstantiableFromParameterSet` that can be instantiated by the `InstanceParameterSet` `pars`.

Uses of InstanceParameterSet in de.jstacs.parameters

Subclasses of InstanceParameterSet in de.jstacs.parameters
`class` | `SequenceScoringParameterSet<T extends InstantiableFromParameterSet>` Abstract class for a `ParameterSet` containing all parameters necessary to construct an `Object` that implements `InstantiableFromParameterSet`.

Uses of InstanceParameterSet in de.jstacs.sampling

Subclasses of InstanceParameterSet in de.jstacs.sampling
`class` | `AbstractBurnInTestParameterSet` Class for the parameters of a `AbstractBurnInTest`.
`class` | `VarianceRatioBurnInTestParameterSet` Class for the parameters of a `VarianceRatioBurnInTest`.

Uses of InstanceParameterSet in de.jstacs.sequenceScores.statisticalModels.differentiable.directedGraphicalModels

Subclasses of InstanceParameterSet in de.jstacs.sequenceScores.statisticalModels.differentiable.directedGraphicalModels
`class` | `BayesianNetworkDiffSMParameterSet` Class for the parameters of a `BayesianNetworkDiffSM`.

Methods in de.jstacs.sequenceScores.statisticalModels.differentiable.directedGraphicalModels that return InstanceParameterSet
`InstanceParameterSet` | `BayesianNetworkDiffSM.getCurrentParameterSet()`

Uses of InstanceParameterSet in de.jstacs.sequenceScores.statisticalModels.differentiable.directedGraphicalModels.structureLearning.measures

Subclasses of InstanceParameterSet in de.jstacs.sequenceScores.statisticalModels.differentiable.directedGraphicalModels.structureLearning.measures
`static class` | `InhomogeneousMarkov.InhomogeneousMarkovParameterSet` Class for an `InstanceParameterSet` that defines the parameters of an `InhomogeneousMarkov` structure `Measure`.
`static class` | `Measure.MeasureParameterSet` This class is the super class of any `ParameterSet` that can be used to instantiate a `Measure`.

Methods in de.jstacs.sequenceScores.statisticalModels.differentiable.directedGraphicalModels.structureLearning.measures that return InstanceParameterSet
`InstanceParameterSet<Measure>` | `Measure.getCurrentParameterSet()`

Uses of InstanceParameterSet in de.jstacs.sequenceScores.statisticalModels.differentiable.directedGraphicalModels.structureLearning.measures.btMeasures

Subclasses of InstanceParameterSet in de.jstacs.sequenceScores.statisticalModels.differentiable.directedGraphicalModels.structureLearning.measures.btMeasures
`static class` | `BTExplainingAwayResidual.BTExplainingAwayResidualParameterSet` Class for the parameters of a `BTExplainingAwayResidual` structure `Measure`.
`static class` | `BTMutualInformation.BTMutualInformationParameterSet` Class for the parameters of a `BTMutualInformation` structure `Measure`.

Uses of InstanceParameterSet in de.jstacs.sequenceScores.statisticalModels.differentiable.directedGraphicalModels.structureLearning.measures.pmmMeasures

Subclasses of InstanceParameterSet in de.jstacs.sequenceScores.statisticalModels.differentiable.directedGraphicalModels.structureLearning.measures.pmmMeasures
`static class` | `PMMExplainingAwayResidual.PMMExplainingAwayResidualParameterSet` Class for the parameters of a `PMMExplainingAwayResidual` structure `Measure`.
`static class` | `PMMMutualInformation.PMMMutualInformationParameterSet` Class for the parameters of a `PMMMutualInformation` structure `Measure`.

Uses of InstanceParameterSet in de.jstacs.sequenceScores.statisticalModels.trainable.discrete

Subclasses of InstanceParameterSet in de.jstacs.sequenceScores.statisticalModels.trainable.discrete
`class` | `DGTrainSMParameterSet<T extends DiscreteGraphicalTrainSM>` The super `ParameterSet` for any parameter set of a `DiscreteGraphicalTrainSM`.

Uses of InstanceParameterSet in de.jstacs.sequenceScores.statisticalModels.trainable.discrete.homogeneous.parameters

Subclasses of InstanceParameterSet in de.jstacs.sequenceScores.statisticalModels.trainable.discrete.homogeneous.parameters
`class` | `HomMMParameterSet` This class implements a container for all parameters of a homogeneous Markov model.
`class` | `HomogeneousTrainSMParameterSet` This class implements a container for all parameters of any homogeneous model.

Uses of InstanceParameterSet in de.jstacs.sequenceScores.statisticalModels.trainable.discrete.inhomogeneous.parameters

Subclasses of InstanceParameterSet in de.jstacs.sequenceScores.statisticalModels.trainable.discrete.inhomogeneous.parameters
`class` | `BayesianNetworkTrainSMParameterSet` The `ParameterSet` for the class `BayesianNetworkTrainSM`.
`class` | `FSDAGModelForGibbsSamplingParameterSet` The class for the parameters of a `FSDAGModelForGibbsSampling`.
`class` | `FSDAGTrainSMParameterSet` The class for the parameters of a `FSDAGTrainSM` (fixed structure directed acyclic graphical model).
`class` | `IDGTrainSMParameterSet` This is the abstract container of parameters that is a root container for all inhomogeneous discrete graphical model parameter containers.

Uses of InstanceParameterSet in de.jstacs.utils

Methods in de.jstacs.utils that return types with arguments of type InstanceParameterSet
`static
`<T> LinkedList<InstanceParameterSet<? extends T>>`
` | `SubclassFinder.getInstanceParameterSets(Class<T> clazz, String startPackage)` This method returns a list of `InstanceParameterSet`s that can be used to create a subclass of `clazz`.
`static LinkedList<Class<? extends InstanceParameterSet>>` | `SubclassFinder.getParameterSetFor(Class<? extends InstantiableFromParameterSet> clazz)` Returns a `LinkedList` of the classes of the `InstanceParameterSet`s that can be used to instantiate the sub-class of `InstantiableFromParameterSet` that is given by `clazz`

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