Package edu.cmu.tetrad.search

Class IndTestConditionalGaussianLRT

java.lang.Object

edu.cmu.tetrad.search.IndTestConditionalGaussianLRT

All Implemented Interfaces:

IndependenceTest

public class IndTestConditionalGaussianLRT
extends Object
implements IndependenceTest

Performs a test of conditional independence X _||_ Y | Z1...Zn where all searchVariables are either continuous or discrete. This test is valid for both ordinal and non-ordinal discrete searchVariables.

Assumed a conditional Gaussain model and uses a likelihood rat test.

Author:

Joseph Ramsey

Constructor Summary

Constructors

Constructor	Description
IndTestConditionalGaussianLRT(DataSet data, double alpha, boolean discretize)

Method Summary

Modifier and Type	Method	Description
IndependenceResult	checkIndependence(Node x, Node y, List<Node> z)
boolean	determines(List<Node> z, Node y)
double	getAlpha()
ICovarianceMatrix	getCov()
List<Matrix>	getCovMatrices()
DataSet	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()
IndependenceTest	indTestSubset(List<Node> vars)
boolean	isVerbose()
void	setAlpha(double alpha)	Sets the significance level.
void	setNumCategoriesToDiscretize(int numCategoriesToDiscretize)
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

IndTestConditionalGaussianLRT

public IndTestConditionalGaussianLRT(DataSet data,
 double alpha,
 boolean discretize)

Method Details

indTestSubset

public IndependenceTest indTestSubset(List<Node> vars)

Specified by:

indTestSubset in interface IndependenceTest

Returns:

an Independence test for a subset of the searchVariables.

checkIndependence

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

Specified by:

checkIndependence in interface IndependenceTest

Returns:

true if the given independence question is judged true, false if not. The independence question is of the form x _||_ y | z, z = z1,...,zn, where x, y, z1,...,zn are searchVariables in the list returned by getVariableNames().

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 searchVariables over which this independence checker is capable of determinining independence relations.

getVariableNames

public List<String> getVariableNames()

Specified by:

getVariableNames in interface IndependenceTest

Returns:

the list of variable varNames.

getVariable

public Node getVariable(String name)

Specified by:

getVariable in interface IndependenceTest

Returns:

the variable by the given name.

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 DataSet 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()

Description copied from interface: IndependenceTest

A score that is higher with more likely models.

Specified by:

getScore in interface IndependenceTest

toString

public String toString()

Specified by:

toString in interface IndependenceTest

Overrides:

toString in class Object

Returns:

a string representation of this test.

isVerbose

public boolean isVerbose()

Specified by:

isVerbose in interface IndependenceTest

setVerbose

public void setVerbose(boolean verbose)

Specified by:

setVerbose in interface IndependenceTest

setNumCategoriesToDiscretize

public void setNumCategoriesToDiscretize(int numCategoriesToDiscretize)