PairDPMatrix (biojava-legacy 1.9.5 API)

java.lang.Object
- org.biojava.bio.dp.twohead.PairDPMatrix

All Implemented Interfaces:

Serializable, DPMatrix
```
public class PairDPMatrix
extends Object
implements DPMatrix, Serializable
```
Storage structure for intermediate values from a pairwise dynamic programming run.

Author:

Thomas Down

See Also:

Serialized Form

Constructor Summary

Constructors
Constructor Description

PairDPMatrix(DP dp, SymbolList seq0, SymbolList seq1)

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`double`	`getCell(int[] indxs)`
`double`	`getScore()`
`MarkovModel`	`model()`
`State[]`	`states()`
`SymbolList[]`	`symList()`

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

PairDPMatrix

public PairDPMatrix(DP dp,
                    SymbolList seq0,
                    SymbolList seq1)

Method Detail
- states
```
public State[] states()
```
  Specified by:
  
  states in interface DPMatrix
- model
```
public MarkovModel model()
```
  Specified by:
  
  model in interface DPMatrix
- symList
```
public SymbolList[] symList()
```
  Specified by:
  
  symList in interface DPMatrix
- getScore
```
public double getScore()
```
  Specified by:
  
  getScore in interface DPMatrix
- getCell
```
public double getCell(int[] indxs)
```
  Specified by:
  
  getCell in interface DPMatrix