ScoreMatrix (JEBL2 lib API)

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Summary:
Nested |
Field |
Constr |
Method

Detail:
Field |
Constr |
Method

All Known Implementing Classes:

AminoAcidScores, Blosum45, Blosum50, Blosum55, Blosum60, Blosum62, Blosum65, Blosum70, Blosum75, Blosum80, Blosum85, Blosum90, Hamming, JukesCantor, NucleotideScores, Pam100, Pam110, Pam120, Pam130, Pam140, Pam150, Pam160, Pam170, Pam180, Pam190, Pam200, Pam210, Pam220, Pam230, Pam240, Pam250, Scores, SubstScoreMatrix
```
public interface ScoreMatrix
```
Version:

$Id: ScoreMatrix.java 360 2006-06-22 07:42:48Z pepster $

Author:

Alexei Drummond

Method Summary

All Methods Instance Methods Abstract Methods
Modifier and Type	Method	Description
`java.lang.String`	`getAlphabet()`
`java.lang.String`	`getName()`
`float`	`getScore(char x, char y)`

- Method Detail
  - getName
```
java.lang.String getName()
```
    Returns:
    
    human readable name
  - getScore
```
float getScore(char x,
               char y)
```
    Returns:
    
    the score for matching char x with char y
  - getAlphabet
```
java.lang.String getAlphabet()
```
    Returns:
    
    a string containing the valid characters for this score matrix.

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http://code.google.com/p/jebl2/