Uses of Interface
org.biojava.bio.dist.OrderNDistribution

Packages that use OrderNDistribution

org.biojava.bio.dist	Probability distributions over Alphabets.
org.biojavax.ga.functions	GA functions
org.biojavax.ga.util	Utility functions and helper classes

Uses of OrderNDistribution in org.biojava.bio.dist

Classes in org.biojava.bio.dist that implement OrderNDistribution

class

AbstractOrderNDistribution Simple base class for OrderNDistributions.

Methods in org.biojava.bio.dist with parameters of type OrderNDistribution

protected static 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 OrderNDistribution

OrderNDistribution	MutationFunction.getMutationSpectrum()
OrderNDistribution	MutationFunction.NoMutation.getMutationSpectrum()
OrderNDistribution	AbstractMutationFunction.getMutationSpectrum()

Methods in org.biojavax.ga.functions with parameters of type OrderNDistribution

void	MutationFunction.setMutationSpectrum(OrderNDistribution mutationSpectrum) Sets the Distribution of Symbols that will be selected from when a mutation occurs.
void	MutationFunction.NoMutation.setMutationSpectrum(OrderNDistribution odn)
void	AbstractMutationFunction.setMutationSpectrum(OrderNDistribution mutationSpectrum)

Uses of OrderNDistribution in org.biojavax.ga.util

Methods in org.biojavax.ga.util that return OrderNDistribution

static OrderNDistribution	GATools.standardMutationDistribution(FiniteAlphabet a) Makes a mutation Distribution where the probability of a Symbol being mutated to itself is zero and the probability of it being changed to any other Symbol in the Alphabet a is 1.0 / (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).