SingleDPMatrix (biojava-legacy 1.9.5 API)

java.lang.Object
- org.biojava.bio.dp.onehead.SingleDPMatrix

All Implemented Interfaces:

Serializable, DPMatrix
```
public class SingleDPMatrix
extends Object
implements DPMatrix, Serializable
```
The dynamic programming matrix for a single sequence.

Author:

Matthew Pocock, Lukas Kall

See Also:

Serialized Form

Field Summary

Fields
Modifier and Type Field Description

protected MarkovModel model

protected double score

double[][] scores

protected State[] states

protected SymbolList[] symList

Constructor Summary

Constructors
Constructor Description

SingleDPMatrix(DP dp, SymbolList symList)

Method Summary

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

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

Field Detail

states
```
protected final State[] states
```

model
```
protected final MarkovModel model
```

symList
```
protected final SymbolList[] symList
```

scores
```
public final double[][] scores
```

score
```
protected double score
```

Constructor Detail

SingleDPMatrix

public SingleDPMatrix(DP dp,
                      SymbolList symList)

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
- setScore
```
public void setScore(double score)
```
- getCell
```
public double getCell(int[] index)
               throws IndexOutOfBoundsException
```
  Specified by:
  
  getCell in interface DPMatrix
  
  Throws:
  
  IndexOutOfBoundsException