Uses of Interface
org.biojava.bio.dist.DistributionFactory
Packages that use DistributionFactory
Package
Description
Probability distributions over Alphabets.
HMM and Dynamic Programming Algorithms.
Tools for working with profile Hidden Markov Models from the HMMer package.
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Uses of DistributionFactory in org.biojava.bio.dist
Classes in org.biojava.bio.dist that implement DistributionFactoryModifier and TypeClassDescriptionstatic class
The default DistributionFactory implementation.class
Default factory for Order-N distributions.Fields in org.biojava.bio.dist declared as DistributionFactoryModifier and TypeFieldDescriptionstatic final DistributionFactory
DistributionFactory.DEFAULT
The default DistributionFactory object.static final DistributionFactory
OrderNDistributionFactory.DEFAULT
Factory which used DistributionFactory.DEFAULT to create conditioned distributions.Constructors in org.biojava.bio.dist with parameters of type DistributionFactoryModifierConstructorDescriptionConstruct a new OrderNDistributionFactory with a specified factory for conditioned distributions.TranslatedDistribution
(ReversibleTranslationTable table, Distribution other, DistributionFactory distFact) Create a new TranslatedDistribution. -
Uses of DistributionFactory in org.biojava.bio.dp
Constructors in org.biojava.bio.dp with parameters of type DistributionFactoryModifierConstructorDescriptionProfileHMM
(Alphabet alpha, int columns, DistributionFactory matchFactory, DistributionFactory insertFactory) Deprecated.ProfileHMM
(Alphabet alpha, int columns, DistributionFactory matchFactory, DistributionFactory insertFactory, String name) Create a new ProfileHMM.SimpleWeightMatrix
(Alphabet alpha, int columns, DistributionFactory dFact) -
Uses of DistributionFactory in org.biojava.bio.program.hmmer
Constructors in org.biojava.bio.program.hmmer with parameters of type DistributionFactoryModifierConstructorDescriptionprotected
HmmerProfileHMM
(Alphabet alpha, int columns, DistributionFactory matchFactory, DistributionFactory insertFactory, String name)