Package org.biojava.nbio.alignment.routines

Class AlignerHelper.Cut

java.lang.Object

org.biojava.nbio.alignment.routines.AlignerHelper.Cut

Enclosing class:

AlignerHelper

public static class AlignerHelper.Cut
extends Object

Defines a 'cut' row for divide-and-conquer alignment in which a new anchor is found.

Constructor Summary

Constructors

Constructor	Description
Cut(int queryIndex, int[] dim)

Method Summary

Modifier and Type	Method	Description
int	getQueryIndex()
int	getTargetIndex(int z)
void	update(int x, AlignerHelper.Subproblem subproblem, AlignerHelper.Last[][] pointers)

Methods inherited from class java.lang.Object

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

Constructor Detail

Cut

public Cut(int queryIndex,
           int[] dim)

Method Detail

getQueryIndex

public int getQueryIndex()

getTargetIndex

public int getTargetIndex(int z)

update

public void update(int x,
                   AlignerHelper.Subproblem subproblem,
                   AlignerHelper.Last[][] pointers)