alun.markov
Class GraphicalModel

java.lang.Object
  alun.markov.GraphicalModel

Direct Known Subclasses:

AuxiliaryModel, GenotypeModel

public class GraphicalModel
extends java.lang.Object

Constructor Summary

GraphicalModel()

GraphicalModel(Product p)

GraphicalModel(Product p, java.util.Collection<? extends Variable> keep)

GraphicalModel(Product p, Variable keep)

Method Summary

void	allocateInvolTables()
void	allocateOutputTables()
double	allocLogPeel()
void	clearInvolTables()
void	clearOutputTables()
java.util.Set<Function>	cliqueConditionals()
java.util.Set<Function>	cliqueConditionals(boolean sparse)
void	collect()
void	distribute()
void	drop()
void	findMarginals()
Table	getConditional(java.util.Set<? extends Variable> u, java.util.Set<? extends Variable> v, boolean sparse)
Function	getFinal()
Product	getFinals()
Table	getMarginal(java.util.Set<? extends Variable> v)
Table	getMarginal(java.util.Set<? extends Variable> v, boolean sparse)
Table	getMarginal(Variable v)
double	getMax()
double	log10Peel()
double	logPeel()
Clique	makeClique(java.util.Set<Variable> v, Clique next, Product p)
GraphicalModel	makeGraphicalModel(Product p)
void	max()
double	maxComplexity()
Product	meanGetFinals()
int[]	nCuts()
int[]	nInvols()
double	peel()
void	reduceStates()
double[]	sizeCuts()
double[]	sizeInvols()
double	store()
double	time()
java.lang.String	toString()
double	totalComplexity()

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, wait, wait, wait

Constructor Detail

GraphicalModel

public GraphicalModel()

GraphicalModel

public GraphicalModel(Product p)

GraphicalModel

public GraphicalModel(Product p,
                      Variable keep)

GraphicalModel

public GraphicalModel(Product p,
                      java.util.Collection<? extends Variable> keep)

Method Detail

makeGraphicalModel

public GraphicalModel makeGraphicalModel(Product p)

time

public double time()

store

public double store()

nInvols

public int[] nInvols()

nCuts

public int[] nCuts()

sizeInvols

public double[] sizeInvols()

sizeCuts

public double[] sizeCuts()

allocateOutputTables

public void allocateOutputTables()

allocateInvolTables

public void allocateInvolTables()

clearOutputTables

public void clearOutputTables()

clearInvolTables

public void clearInvolTables()

peel

public double peel()

logPeel

public double logPeel()

allocLogPeel

public double allocLogPeel()

log10Peel

public double log10Peel()

collect

public void collect()

distribute

public void distribute()

max

public void max()

drop

public void drop()

findMarginals

public void findMarginals()

getMarginal

public Table getMarginal(Variable v)

getMarginal

public Table getMarginal(java.util.Set<? extends Variable> v)

getMarginal

public Table getMarginal(java.util.Set<? extends Variable> v,
                         boolean sparse)

getConditional

public Table getConditional(java.util.Set<? extends Variable> u,
                            java.util.Set<? extends Variable> v,
                            boolean sparse)

reduceStates

public void reduceStates()

makeClique

public Clique makeClique(java.util.Set<Variable> v,
                         Clique next,
                         Product p)

toString

public java.lang.String toString()

Overrides:

toString in class java.lang.Object

getMax

public double getMax()

getFinal

public Function getFinal()

getFinals

public Product getFinals()

meanGetFinals

public Product meanGetFinals()

cliqueConditionals

public java.util.Set<Function> cliqueConditionals()

cliqueConditionals

public java.util.Set<Function> cliqueConditionals(boolean sparse)

totalComplexity

public double totalComplexity()

maxComplexity

public double maxComplexity()