Package edu.cmu.tetrad.search

Class IndTestDSep

java.lang.Object

edu.cmu.tetrad.search.IndTestDSep

All Implemented Interfaces:

IndependenceTest

public class IndTestDSep
extends Object
implements IndependenceTest

Checks independence facts for variables associated with the nodes in a given graph by checking d-separation facts on the underlying nodes.

Author:

Joseph Ramsey

Constructor Summary

Constructors

Constructor	Description
IndTestDSep(IndependenceFacts facts)
IndTestDSep(IndependenceFacts facts, boolean keepLatents)
IndTestDSep(IndependenceFacts facts, List<Node> variables)
IndTestDSep(Graph graph)
IndTestDSep(Graph graph, boolean keepLatents)	Constructs a new independence test that returns d-separation facts for the given graph as independence results.

Method Summary

Modifier and Type	Method	Description
IndependenceResult	checkIndependence(Node x, Node y, List<Node> z)	Checks the indicated d-separation fact.
boolean	determines(List<Node> z, Node x1)
double	getAlpha()
ICovarianceMatrix	getCov()
List<Matrix>	getCovMatrices()
DataSet	getData()
List<DataSet>	getDataSets()
List<IndependenceFact>	getFacts()
Graph	getGraph()
double	getPValue()	Needed for IndependenceTest interface.
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)	Required by IndependenceTest.
boolean	isDSeparated(Node x, Node y, List<Node> z)	Auxiliary method to calculate dseparation facts directly from nodes instead of from variables.
boolean	isVerbose()
void	setAlpha(double alpha)	Sets the significance level.
void	setGraph(Graph graph)
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

IndTestDSep

public IndTestDSep(Graph graph)

IndTestDSep

public IndTestDSep(IndependenceFacts facts,
 List<Node> variables)

IndTestDSep

public IndTestDSep(IndependenceFacts facts)

IndTestDSep

public IndTestDSep(Graph graph,
 boolean keepLatents)

Constructs a new independence test that returns d-separation facts for the given graph as independence results.

IndTestDSep

public IndTestDSep(IndependenceFacts facts,
 boolean keepLatents)

Method Details

indTestSubset

public IndependenceTest indTestSubset(List<Node> vars)

Required by IndependenceTest.

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)

Checks the indicated d-separation fact.

Specified by:

checkIndependence in interface IndependenceTest

Parameters:

x - one node.

y - a second node.

z - a List of nodes (conditioning variables)

Returns:

true iff x _||_ y | z

isDSeparated

public boolean isDSeparated(Node x,
 Node y,
 List<Node> z)

Auxiliary method to calculate dseparation facts directly from nodes instead of from variables.

getPValue

public double getPValue()

Needed for IndependenceTest interface. P value is not meaningful here.

getVariables

public List<Node> getVariables()

Specified by:

getVariables in interface IndependenceTest

Returns:

the list of TetradNodes over which this independence checker is capable of determinine independence relations-- that is, all the variables in the given graph or the given data set.

getVariableNames

public List<String> getVariableNames()

Specified by:

getVariableNames in interface IndependenceTest

Returns:

the list of variable varNames.

determines

public boolean determines(List<Node> z,
 Node x1)

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.

setAlpha

public void setAlpha(double alpha)

Description copied from interface: IndependenceTest

Sets the significance level.

Specified by:

setAlpha in interface IndependenceTest

getVariable

public Node getVariable(String name)

Specified by:

getVariable in interface IndependenceTest

Returns:

the variable by the given name.

getGraph

public Graph getGraph()

Returns:

the underlying graph.

setGraph

public void setGraph(Graph graph)

toString

public String toString()

Specified by:

toString in interface IndependenceTest

Overrides:

toString in class Object

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

getFacts

public List<IndependenceFact> getFacts()

isVerbose

public boolean isVerbose()

Specified by:

isVerbose in interface IndependenceTest

setVerbose

public void setVerbose(boolean verbose)

Specified by:

setVerbose in interface IndependenceTest