meshi.sequences.aligner
Class StructureBasedMatrix

java.lang.Object
  meshi.sequences.aligner.StructureBasedMatrix

All Implemented Interfaces:

CellScorer

public class StructureBasedMatrix
extends java.lang.Object
implements CellScorer

Field Summary

double	gapPenalty
double[][]	scores

Constructor Summary

StructureBasedMatrix(double gapPenalty, double[][] scores)

Method Summary

double

getScore(Cell cell)

Methods inherited from class java.lang.Object

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

Field Detail

gapPenalty

public final double gapPenalty

scores

public final double[][] scores

Constructor Detail

StructureBasedMatrix

public StructureBasedMatrix(double gapPenalty,
                            double[][] scores)

Method Detail

getScore

public double getScore(Cell cell)

Specified by:

getScore in interface CellScorer