com.wcohen.secondstring
Class AffineGap.MatrixTrio

java.lang.Object
  |
  +--com.wcohen.secondstring.MemoMatrix
        |
        +--com.wcohen.secondstring.AffineGap.MatrixTrio

Enclosing class:

AffineGap

protected class AffineGap.MatrixTrio

extends MemoMatrix

Nested Class Summary

protected class	AffineGap.MatrixTrio.InsertSMatrix
protected class	AffineGap.MatrixTrio.InsertTMatrix

Field Summary

protected AffineGap.MatrixTrio.InsertSMatrix	is
protected AffineGap.MatrixTrio.InsertTMatrix	it
protected MemoMatrix	m

Fields inherited from class com.wcohen.secondstring.MemoMatrix

cellFormat, s, t

Constructor Summary

AffineGap.MatrixTrio(StringWrapper s, StringWrapper t)

Method Summary

double

compute(int i, int j)

Methods inherited from class com.wcohen.secondstring.MemoMatrix

max3, max4, sAt, tAt, toString

Methods inherited from class java.lang.Object

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

Field Detail

m

protected MemoMatrix m

is

protected AffineGap.MatrixTrio.InsertSMatrix is

it

protected AffineGap.MatrixTrio.InsertTMatrix it

Constructor Detail

AffineGap.MatrixTrio

public AffineGap.MatrixTrio(StringWrapper s,
                            StringWrapper t)

Method Detail

compute

public double compute(int i,
                      int j)

Overrides:

compute in class MemoMatrix