Uses of Package
de.jstacs.classifiers.differentiableSequenceScoreBased

Packages that use de.jstacs.classifiers.differentiableSequenceScoreBased

Package	Description
de.jstacs.classifiers.differentiableSequenceScoreBased	Provides the classes for Classifiers that are based on SequenceScores. It includes a sub-package for discriminative objective functions, namely conditional likelihood and supervised posterior, and a separate sub-package for the parameter priors, that can be used for the supervised posterior.
de.jstacs.classifiers.differentiableSequenceScoreBased.gendismix	Provides an implementation of a classifier that allows to train the parameters of a set of DifferentiableStatisticalModels by a unified generative-discriminative learning principle.
de.jstacs.classifiers.differentiableSequenceScoreBased.msp	Provides an implementation of a classifier that allows to train the parameters of a set of DifferentiableStatisticalModels either by maximum supervised posterior (MSP) or by maximum conditional likelihood (MCL).
de.jstacs.classifiers.differentiableSequenceScoreBased.sampling	Provides the classes for AbstractScoreBasedClassifiers that are based on SamplingDifferentiableStatisticalModels and that sample parameters using the Metropolis-Hastings algorithm.
de.jstacs.motifDiscovery	This package provides the framework including the interface for any de novo motif discoverer.

Classes in de.jstacs.classifiers.differentiableSequenceScoreBased used by de.jstacs.classifiers.differentiableSequenceScoreBased

Class and Description
AbstractMultiThreadedOptimizableFunction This class enables the user to exploit all CPUs of an computer by using threads.
AbstractOptimizableFunction This class extends OptimizableFunction and implements some common methods.
DiffSSBasedOptimizableFunction This abstract class is the basis of all multi-threaded OptimizableFunctions that are based on DifferentiableSequenceScores.
OptimizableFunction This is the main function for the ScoreClassifier.
OptimizableFunction.KindOfParameter This enum defines the kinds of parameters that can be returned by the method OptimizableFunction.getParameters(KindOfParameter).
ScoreClassifier This abstract class implements the main functionality of a DifferentiableSequenceScore based classifier.
ScoreClassifierParameterSet A set of Parameters for any ScoreClassifier.

Classes in de.jstacs.classifiers.differentiableSequenceScoreBased used by de.jstacs.classifiers.differentiableSequenceScoreBased.gendismix

Class and Description
AbstractMultiThreadedOptimizableFunction This class enables the user to exploit all CPUs of an computer by using threads.
AbstractOptimizableFunction This class extends OptimizableFunction and implements some common methods.
DiffSSBasedOptimizableFunction This abstract class is the basis of all multi-threaded OptimizableFunctions that are based on DifferentiableSequenceScores.
OptimizableFunction This is the main function for the ScoreClassifier.
OptimizableFunction.KindOfParameter This enum defines the kinds of parameters that can be returned by the method OptimizableFunction.getParameters(KindOfParameter).
ScoreClassifier This abstract class implements the main functionality of a DifferentiableSequenceScore based classifier.
ScoreClassifierParameterSet A set of Parameters for any ScoreClassifier.

Classes in de.jstacs.classifiers.differentiableSequenceScoreBased used by de.jstacs.classifiers.differentiableSequenceScoreBased.msp

Class and Description
ScoreClassifier This abstract class implements the main functionality of a DifferentiableSequenceScore based classifier.

Classes in de.jstacs.classifiers.differentiableSequenceScoreBased used by de.jstacs.classifiers.differentiableSequenceScoreBased.sampling

Class and Description
DiffSSBasedOptimizableFunction This abstract class is the basis of all multi-threaded OptimizableFunctions that are based on DifferentiableSequenceScores.

Classes in de.jstacs.classifiers.differentiableSequenceScoreBased used by de.jstacs.motifDiscovery

Class and Description
DiffSSBasedOptimizableFunction This abstract class is the basis of all multi-threaded OptimizableFunctions that are based on DifferentiableSequenceScores.
OptimizableFunction.KindOfParameter This enum defines the kinds of parameters that can be returned by the method OptimizableFunction.getParameters(KindOfParameter).