com.milaboratory.core.mutations.generator

Class SubstitutionModel

java.lang.Object

com.milaboratory.core.mutations.generator.SubstitutionModel

All Implemented Interfaces:

Serializable

public final class SubstitutionModel
extends Object
implements Serializable

See Also:

Serialized Form

Constructor Summary

Constructors

Constructor and Description
SubstitutionModel(double[] probabilities)

Method Summary

Methods

Modifier and Type	Method and Description
double	getProbability(int fromLetter, int toLetter)
double	getTotalSubstitutionProbability(int letter)
SubstitutionModel	multiplyProbabilities(double factor)
int	sample(org.apache.commons.math3.random.RandomGenerator generator, int letter)
int	sampleAsMutation(org.apache.commons.math3.random.RandomGenerator generator, int position, int letter)

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

SubstitutionModel

public SubstitutionModel(double[] probabilities)

Method Detail

multiplyProbabilities

public SubstitutionModel multiplyProbabilities(double factor)

sample

public int sample(org.apache.commons.math3.random.RandomGenerator generator,
         int letter)

sampleAsMutation

public int sampleAsMutation(org.apache.commons.math3.random.RandomGenerator generator,
                   int position,
                   int letter)

getTotalSubstitutionProbability

public double getTotalSubstitutionProbability(int letter)

getProbability

public double getProbability(int fromLetter,
                    int toLetter)