com.milaboratory.core.alignment.batch

Class SimpleBatchAlignerParameters<S extends Sequence<S>>

java.lang.Object

com.milaboratory.core.alignment.batch.SimpleBatchAlignerParameters<S>

Type Parameters:

S - sequence type

public class SimpleBatchAlignerParameters<S extends Sequence<S>>
extends Object

Parameters of SimpleBatchAligner.

Constructor Summary

Constructors

Constructor and Description
SimpleBatchAlignerParameters(int maxHits, float relativeMinScore, float absoluteMinScore, boolean global, AlignmentScoring<S> scoring)

Method Summary

Methods

Modifier and Type	Method and Description
float	getAbsoluteMinScore()
int	getMaxHits()
float	getRelativeMinScore()
AlignmentScoring<S>	getScoring()
boolean	isGlobal()
void	setAbsoluteMinScore(float absoluteMinScore)
void	setGlobal(boolean global)
void	setMaxHits(int maxHits)
void	setRelativeMinScore(float relativeMinScore)
void	setScoring(AlignmentScoring<S> scoring)

Methods inherited from class java.lang.Object

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

Constructor Detail

SimpleBatchAlignerParameters

public SimpleBatchAlignerParameters(int maxHits,
                            float relativeMinScore,
                            float absoluteMinScore,
                            boolean global,
                            AlignmentScoring<S> scoring)

Method Detail

isGlobal

public boolean isGlobal()

setGlobal

public void setGlobal(boolean global)

getScoring

public AlignmentScoring<S> getScoring()

setScoring

public void setScoring(AlignmentScoring<S> scoring)

getMaxHits

public int getMaxHits()

setMaxHits

public void setMaxHits(int maxHits)

getRelativeMinScore

public float getRelativeMinScore()

setRelativeMinScore

public void setRelativeMinScore(float relativeMinScore)

getAbsoluteMinScore

public float getAbsoluteMinScore()

setAbsoluteMinScore

public void setAbsoluteMinScore(float absoluteMinScore)