A B C D E F G H I J K L M N O P Q R S T U V W X

U

UniformDurationScoringFunction - Class in de.jstacs.scoringFunctions.mix.motifSearch

This scoring function implements a uniform distribution for positions.

UniformDurationScoringFunction(int, int) - Constructor for class de.jstacs.scoringFunctions.mix.motifSearch.UniformDurationScoringFunction

This is the main constructor that creates an instance for the given interval.

UniformDurationScoringFunction(int, int, double) - Constructor for class de.jstacs.scoringFunctions.mix.motifSearch.UniformDurationScoringFunction

This is the main constructor that creates an instance for the given interval and given ESS.

UniformDurationScoringFunction(StringBuffer) - Constructor for class de.jstacs.scoringFunctions.mix.motifSearch.UniformDurationScoringFunction

This is the constructor for Storable.

UniformHomogeneousScoringFunction - Class in de.jstacs.scoringFunctions.homogeneous

This scoring function does nothing.

UniformHomogeneousScoringFunction(AlphabetContainer, double) - Constructor for class de.jstacs.scoringFunctions.homogeneous.UniformHomogeneousScoringFunction

This is the main constructor that creates an instance of a UniformHomogeneousScoringFunction that models each sequence uniformly.

UniformHomogeneousScoringFunction(StringBuffer) - Constructor for class de.jstacs.scoringFunctions.homogeneous.UniformHomogeneousScoringFunction

This is the constructor for Storable.

UniformModel - Class in de.jstacs.models

This class represents a uniform model.

UniformModel(AlphabetContainer) - Constructor for class de.jstacs.models.UniformModel

Creates a new UniformModel using a given AlphabetContainer.

UniformModel(StringBuffer) - Constructor for class de.jstacs.models.UniformModel

The standard constructor for the interface Storable.

UniformPositionPrior - Class in de.jstacs.models.mixture.motif.positionprior

This prior implements a uniform distribution for the start position.

UniformPositionPrior() - Constructor for class de.jstacs.models.mixture.motif.positionprior.UniformPositionPrior

This empty constructor creates an instance with motif length -1.

UniformPositionPrior(StringBuffer) - Constructor for class de.jstacs.models.mixture.motif.positionprior.UniformPositionPrior

The standard constructor for the interface Storable.

UniformScoringFunction - Class in de.jstacs.scoringFunctions

This ScoringFunction does nothing.

UniformScoringFunction(AlphabetContainer, int, double) - Constructor for class de.jstacs.scoringFunctions.UniformScoringFunction

This is the main constructor that creates an instance of a UniformScoringFunction that models each sequence uniformly.

UniformScoringFunction(StringBuffer) - Constructor for class de.jstacs.scoringFunctions.UniformScoringFunction

This is the constructor for the interface Storable.

union(int, int) - Method in class de.jstacs.algorithms.graphs.UnionFind

This method unions the tree that includes the node k1 with the tree that includes node k2.

union(Sample[], boolean[]) - Static method in class de.jstacs.data.Sample

This method unites all Samples of the array s regarding the array in.

union(Sample...) - Static method in class de.jstacs.data.Sample

Unites all Samples of the array s.

union(Sample[], boolean[], int) - Static method in class de.jstacs.data.Sample

This method unites all Samples of the array s regarding the array in and sets the element length in the united Sample to subsequenceLength.

union(Sample[], int) - Static method in class de.jstacs.data.Sample

This method unites all Samples of the array s and sets the element length in the united sample to subsequenceLength.

union(double[][]) - Static method in class de.jstacs.scoringFunctions.directedGraphicalModels.structureLearning.measures.Measure

Linearizes the arrays in the two-dimensional array ar to form a new, one-dimensional array.

UnionFind - Class in de.jstacs.algorithms.graphs

This class implements an Union-Find-algorithm with path contraction.

UnionFind(int) - Constructor for class de.jstacs.algorithms.graphs.UnionFind

Creates a new Union-Find data structure with size nodes.

UNKNOWN - Static variable in class de.jstacs.classifier.scoringFunctionBased.logPrior.LogPrior

Sometimes the method Function.getDimensionOfScope() can not return a value.

UNKNOWN - Static variable in interface de.jstacs.scoringFunctions.ScoringFunction

Indicates that the number of parameters of this ScoringFunction is not known (yet).

unset() - Method in class de.jstacs.classifier.scoringFunctionBased.logPrior.SeparateGaussianLogPrior

unset() - Method in class de.jstacs.classifier.scoringFunctionBased.logPrior.SeparateLaplaceLogPrior

unset() - Method in class de.jstacs.classifier.scoringFunctionBased.logPrior.SeparateLogPrior

Resets all internally pre-computed values, e.g. the hyperparameters for each parameter.

usedPositions - Variable in class de.jstacs.models.discrete.Constraint

The used positions.

useOnlyFreeParameter() - Method in class de.jstacs.classifier.scoringFunctionBased.ScoreClassifierParameterSet

This method indicates if only the free parameters shall be used.

userSelected - Variable in class de.jstacs.parameters.CollectionParameter

true if the user has selected an item

UserTime - Class in de.jstacs.utils

This is an implementation of Time that uses a native method.

UserTime() - Constructor for class de.jstacs.utils.UserTime

USUALLY - Static variable in class de.jstacs.io.AbstractStringExtractor

The usual comment character is "#".