de.jstacs.sequenceScores.statisticalModels.trainable.discrete.inhomogeneous.parameters
Class FSDAGModelForGibbsSamplingParameterSet

java.lang.Object
  de.jstacs.parameters.ParameterSet
      de.jstacs.parameters.InstanceParameterSet<T>
          de.jstacs.parameters.SequenceScoringParameterSet<T>
              de.jstacs.sequenceScores.statisticalModels.trainable.discrete.DGTrainSMParameterSet
                  de.jstacs.sequenceScores.statisticalModels.trainable.discrete.inhomogeneous.parameters.IDGTrainSMParameterSet
                      de.jstacs.sequenceScores.statisticalModels.trainable.discrete.inhomogeneous.parameters.FSDAGTrainSMParameterSet
                          de.jstacs.sequenceScores.statisticalModels.trainable.discrete.inhomogeneous.parameters.FSDAGModelForGibbsSamplingParameterSet

All Implemented Interfaces:

GalaxyConvertible, Storable, Cloneable

public class FSDAGModelForGibbsSamplingParameterSet
extends FSDAGTrainSMParameterSet

The class for the parameters of a FSDAGModelForGibbsSampling.

Author:

Jens Keilwagen

See Also:

FSDAGModelForGibbsSampling

Nested Class Summary

Nested classes/interfaces inherited from class de.jstacs.parameters.ParameterSet

ParameterSet.ParameterList

Field Summary

Fields inherited from class de.jstacs.parameters.SequenceScoringParameterSet

alphabet, length

Fields inherited from class de.jstacs.parameters.ParameterSet

errorMessage, parameters, parent

Constructor Summary

FSDAGModelForGibbsSamplingParameterSet()
This is the constructor that creates an empty parameter set for a FSDAGModelForGibbsSampling.

FSDAGModelForGibbsSamplingParameterSet(AlphabetContainer alphabet, int length, double ess, String description, String graph)
This is the constructor that creates a filled parameter set.

FSDAGModelForGibbsSamplingParameterSet(StringBuffer s)
The constructor for the Storable interface.

Method Summary

Methods inherited from class de.jstacs.sequenceScores.statisticalModels.trainable.discrete.inhomogeneous.parameters.FSDAGTrainSMParameterSet

encode, getInstanceComment

Methods inherited from class de.jstacs.sequenceScores.statisticalModels.trainable.discrete.inhomogeneous.parameters.IDGTrainSMParameterSet

getModelInstanceName

Methods inherited from class de.jstacs.sequenceScores.statisticalModels.trainable.discrete.DGTrainSMParameterSet

clone, getInstanceName, hasDefaultOrIsSet, setEss

Methods inherited from class de.jstacs.parameters.SequenceScoringParameterSet

equals, fromXML, getAlphabetContainer, getLength, getNumberOfParameters, getParameterAt, reset, toXML

Methods inherited from class de.jstacs.parameters.InstanceParameterSet

getInstance, getInstanceClass

Methods inherited from class de.jstacs.parameters.ParameterSet

fromGalaxy, getAllParameterNames, getComment, getComment, getErrorMessage, getIndex, getName, getName, getParameterForName, getParent, initParameterList, initParameterList, isAtomic, isComparable, parametersLoaded, setParent, toGalaxy

Methods inherited from class java.lang.Object

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

Constructor Detail

FSDAGModelForGibbsSamplingParameterSet

public FSDAGModelForGibbsSamplingParameterSet(StringBuffer s)
                                       throws NonParsableException

The constructor for the Storable interface. Creates a new FSDAGModelForGibbsSamplingParameterSet out of its XML representation.

Parameters:

s - the XML representation as StringBuffer

Throws:

NonParsableException - if the StringBuffer is not parsable

FSDAGModelForGibbsSamplingParameterSet

public FSDAGModelForGibbsSamplingParameterSet()

This is the constructor that creates an empty parameter set for a FSDAGModelForGibbsSampling.

FSDAGModelForGibbsSamplingParameterSet

public FSDAGModelForGibbsSamplingParameterSet(AlphabetContainer alphabet,
                                              int length,
                                              double ess,
                                              String description,
                                              String graph)
                                       throws Exception

This is the constructor that creates a filled parameter set.

Parameters:

alphabet - the alphabet container that is used in the model

length - the length of the model (has to be positive)

ess - the ess (equivalent sample size, has to be positive)

description - a short description of the model (used for a better handling of the object by the user)

graph - the graph description string, encodes in XML-like manner the parents of each node "<parents node=i>j,k,l</parents>"

Throws:

Exception - if something went wrong

See Also:

FSDAGTrainSMParameterSet.encode(int[][])