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Packages that use AbstractNormalizableScoringFunction | |
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de.jstacs.scoringFunctions | Provides ScoringFunction s that can be used in a ScoreClassifier . |
de.jstacs.scoringFunctions.directedGraphicalModels | Provides ScoringFunction s that are equivalent to directed graphical models. |
de.jstacs.scoringFunctions.homogeneous | Provides ScoringFunction s that are homogeneous, i.e. model probabilities or scores independent of the position within a sequence |
de.jstacs.scoringFunctions.mix | Provides ScoringFunction s that are mixtures of other ScoringFunction s. |
de.jstacs.scoringFunctions.mix.motifSearch |
Uses of AbstractNormalizableScoringFunction in de.jstacs.scoringFunctions |
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Subclasses of AbstractNormalizableScoringFunction in de.jstacs.scoringFunctions | |
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class |
IndependentProductScoringFunction
This class enables the user to model parts of a sequence independent of each other. |
class |
MRFScoringFunction
This class implements the scoring function for any MRF (Markov Random Field). |
class |
NormalizedScoringFunction
This class makes an unnormalized ScoringFunction to a normalized ScoringFunction. |
class |
UniformScoringFunction
This ScoringFunction does nothing. |
class |
VariableLengthScoringFunction
This is the main class for all ScoringFunction s that allow to score
subsequences of arbitrary length. |
Methods in de.jstacs.scoringFunctions that return AbstractNormalizableScoringFunction | |
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AbstractNormalizableScoringFunction |
AbstractNormalizableScoringFunction.clone()
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Uses of AbstractNormalizableScoringFunction in de.jstacs.scoringFunctions.directedGraphicalModels |
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Subclasses of AbstractNormalizableScoringFunction in de.jstacs.scoringFunctions.directedGraphicalModels | |
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class |
BayesianNetworkScoringFunction
This class implements a scoring function that is a moral directed graphical model, i.e. a moral Bayesian network. |
class |
MutableMarkovModelScoringFunction
This class implements a NormalizableScoringFunction for an inhomogeneous Markov model. |
Uses of AbstractNormalizableScoringFunction in de.jstacs.scoringFunctions.homogeneous |
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Subclasses of AbstractNormalizableScoringFunction in de.jstacs.scoringFunctions.homogeneous | |
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class |
HMM0ScoringFunction
This scoring function implements a homogeneous Markov model of order zero (hMM(0)) for a fixed sequence length. |
class |
HMMScoringFunction
This scoring function implements a homogeneous Markov model of arbitrary order for any sequence length. |
class |
HomogeneousScoringFunction
This is the main class for all homogeneous ScoringFunction s. |
class |
UniformHomogeneousScoringFunction
This scoring function does nothing. |
Uses of AbstractNormalizableScoringFunction in de.jstacs.scoringFunctions.mix |
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Subclasses of AbstractNormalizableScoringFunction in de.jstacs.scoringFunctions.mix | |
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class |
AbstractMixtureScoringFunction
This main abstract class for any mixture scoring function (e.g. |
class |
MixtureScoringFunction
This class implements a real mixture model. |
class |
StrandScoringFunction
This class enables the user to search on both strand. |
Uses of AbstractNormalizableScoringFunction in de.jstacs.scoringFunctions.mix.motifSearch |
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Subclasses of AbstractNormalizableScoringFunction in de.jstacs.scoringFunctions.mix.motifSearch | |
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class |
DurationScoringFunction
This class is the super class for all one dimensional position scoring functions that can be used as durations for semi Markov models. |
class |
HiddenMotifsMixture
This class handles mixtures with at least one hidden motif. |
class |
PositionScoringFunction
This class implements a position scoring function that enables the user to get a score without using a Sequence object. |
class |
SkewNormalLikeScoringFunction
This class implements a skew normal like discrete truncated distribution. |
class |
UniformDurationScoringFunction
This scoring function implements a uniform distribution for positions. |
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