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## 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 `Sample`s of the array `s` regarding the array `in`.
union(Sample...) - Static method in class de.jstacs.data.Sample
  Unites all `Sample`s of the array `s`.
union(Sample[], boolean[], int) - Static method in class de.jstacs.data.Sample
  This method unites all `Sample`s 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 `Sample`s 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 "#".

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