Uses of Interface
org.biojava.bio.dist.OrderNDistribution
Packages that use OrderNDistribution
Package
Description
Probability distributions over Alphabets.
GA functions
Utility functions and helper classes
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Uses of OrderNDistribution in org.biojava.bio.dist
Classes in org.biojava.bio.dist that implement OrderNDistributionModifier and TypeClassDescriptionclass
Simple base class for OrderNDistributions.Methods in org.biojava.bio.dist with parameters of type OrderNDistributionModifier and TypeMethodDescriptionprotected static final Sequence
DistributionTools.generateOrderNSequence
(String name, OrderNDistribution d, int length) Deprecated.use generateSequence() or generateSymbolList() instead. -
Uses of OrderNDistribution in org.biojavax.ga.functions
Methods in org.biojavax.ga.functions that return OrderNDistributionModifier and TypeMethodDescriptionfinal OrderNDistribution
AbstractMutationFunction.getMutationSpectrum()
MutationFunction.getMutationSpectrum()
MutationFunction.NoMutation.getMutationSpectrum()
Methods in org.biojavax.ga.functions with parameters of type OrderNDistributionModifier and TypeMethodDescriptionfinal void
AbstractMutationFunction.setMutationSpectrum
(OrderNDistribution mutationSpectrum) void
MutationFunction.NoMutation.setMutationSpectrum
(OrderNDistribution odn) void
MutationFunction.setMutationSpectrum
(OrderNDistribution mutationSpectrum) Sets theDistribution
ofSymbols
that will be selected from when a mutation occurs. -
Uses of OrderNDistribution in org.biojavax.ga.util
Methods in org.biojavax.ga.util that return OrderNDistributionModifier and TypeMethodDescriptionstatic OrderNDistribution
GATools.standardMutationDistribution
(FiniteAlphabet a) Makes a mutationDistribution
where the probability of aSymbol
being mutated to itself is zero and the probability of it being changed to any otherSymbol
in theAlphabet a
is1.0 / (a.size() - 1.0)
static OrderNDistribution
GATools.uniformMutationDistribution
(FiniteAlphabet a) Makes a 1st order distribution which is infact uniform (equivalent to a uniform zero order distribution).