DistributionFactory (biojava-legacy 1.9.5 API)

All Known Implementing Classes:

DistributionFactory.DefaultDistributionFactory, OrderNDistributionFactory
```
public interface DistributionFactory
```
A thing that can make Distributions.

This decouples programs from needing to know what implementation of Distribution to instantiate for a given alphabet. It also lets you parameterise model creation for things like profile HMMs.

Since:

1.0

Author:

Matthew Pocock

- Nested Class Summary
  
  Nested Classes
  Modifier and Type Interface Description
  
  static class DistributionFactory.DefaultDistributionFactory
  The default DistributionFactory implementation.
- Field Summary
  
  Fields
  Modifier and Type Field Description
  
  static DistributionFactory DEFAULT
  The default DistributionFactory object.
- Method Summary
  
  All Methods Instance Methods Abstract Methods
  Modifier and Type Method Description
  
  Distribution createDistribution(Alphabet alpha)
  Generate a new Distribution as requested.

- Field Detail
  - DEFAULT
```
static final DistributionFactory DEFAULT
```
    The default DistributionFactory object.
    
    You may wish to alias this within your scripts with something like: DistributionFactory dFact = DistributionFactory.DEFAULT; dFact.createDistribution(...);
- Method Detail
  - createDistribution
```
Distribution createDistribution(Alphabet alpha)
                         throws IllegalAlphabetException
```
    Generate a new Distribution as requested.
    
    Parameters:
    
    alpha - the emission alphabet for the state
    
    Returns:
    
    a new Distribution instance
    
    Throws:
    
    IllegalAlphabetException - if the factory is unable to generate a distribution for the required alphabet