Package edu.cmu.tetrad.search

Class IndTestScore

java.lang.Object

edu.cmu.tetrad.search.IndTestScore

All Implemented Interfaces:

IndependenceTest

public class IndTestScore
extends Object
implements IndependenceTest

Interface implemented by classes that do conditional independence testing. These classes are capable of serving as conditional independence "oracles" for constraint-based searches.

Author:

Don Crimbchin (djc2@andrew.cmu.edu), Joseph Ramsey

Constructor Summary

Constructors

Constructor	Description
IndTestScore(Score score)
IndTestScore(Score score, DataModel data)

Method Summary

Modifier and Type	Method	Description
IndependenceResult	checkIndependence(Node x, Node y, List<Node> z)	Determines whether variable x is independent of variable y given a list of conditioning variables z.
boolean	determines(List<Node> z, Node y)
double	getAlpha()
ICovarianceMatrix	getCov()
List<Matrix>	getCovMatrices()
DataModel	getData()
List<DataSet>	getDataSets()
double	getPValue()
int	getSampleSize()
double	getScore()	A score that is higher with more likely models.
Node	getVariable(String name)
List<String>	getVariableNames()
List<Node>	getVariables()
Score	getWrappedScore()
IndTestScore	indTestSubset(List<Node> vars)
boolean	isVerbose()
void	setAlpha(double alpha)	Sets the significance level.
void	setVerbose(boolean verbose)
String	toString()

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Methods inherited from interface edu.cmu.tetrad.search.IndependenceTest

checkIndependence

Constructor Details

IndTestScore

public IndTestScore(Score score)

IndTestScore

public IndTestScore(Score score,
 DataModel data)

Method Details

indTestSubset

public IndTestScore indTestSubset(List<Node> vars)

Specified by:

indTestSubset in interface IndependenceTest

Returns:

an Independence test for a subset of the variables.

checkIndependence

public IndependenceResult checkIndependence(Node x,
 Node y,
 List<Node> z)

Determines whether variable x is independent of variable y given a list of conditioning variables z.

Specified by:

checkIndependence in interface IndependenceTest

Parameters:

x - the one variable being compared.

y - the second variable being compared.

z - the list of conditioning variables.

Returns:

true iff x _||_ y | z.

Throws:

RuntimeException - if a matrix singularity is encountered.

getPValue

public double getPValue()

Returns:

the probability associated with the most recently executed independence test, of Double.NaN if p value is not meaningful for tis test.

getVariables

public List<Node> getVariables()

Specified by:

getVariables in interface IndependenceTest

Returns:

the list of variables over which this independence checker is capable of determinining independence relations.

getVariable

public Node getVariable(String name)

Specified by:

getVariable in interface IndependenceTest

Returns:

the variable by the given name.

getVariableNames

public List<String> getVariableNames()

Specified by:

getVariableNames in interface IndependenceTest

Returns:

the list of names for the variables in getNodesInEvidence.

determines

public boolean determines(List<Node> z,
 Node y)

Specified by:

determines in interface IndependenceTest

Returns:

true if y is determined the variable in z.

getAlpha

public double getAlpha()

Specified by:

getAlpha in interface IndependenceTest

Returns:

the significance level of the independence test.

Throws:

UnsupportedOperationException - if there is no significance level.

setAlpha

public void setAlpha(double alpha)

Sets the significance level.

Specified by:

setAlpha in interface IndependenceTest

getData

public DataModel getData()

Specified by:

getData in interface IndependenceTest

Returns:

The data model for the independence test.

getCov

public ICovarianceMatrix getCov()

Specified by:

getCov in interface IndependenceTest

getDataSets

public List<DataSet> getDataSets()

Specified by:

getDataSets in interface IndependenceTest

getSampleSize

public int getSampleSize()

Specified by:

getSampleSize in interface IndependenceTest

getCovMatrices

public List<Matrix> getCovMatrices()

Specified by:

getCovMatrices in interface IndependenceTest

getScore

public double getScore()

A score that is higher with more likely models.

Specified by:

getScore in interface IndependenceTest

getWrappedScore

public Score getWrappedScore()

isVerbose

public boolean isVerbose()

Specified by:

isVerbose in interface IndependenceTest

setVerbose

public void setVerbose(boolean verbose)

Specified by:

setVerbose in interface IndependenceTest

toString

public String toString()

Specified by:

toString in interface IndependenceTest

Overrides:

toString in class Object