Package edu.cmu.tetrad.search.utils

Class ClusterSignificance

java.lang.Object

edu.cmu.tetrad.search.utils.ClusterSignificance

public class ClusterSignificance
extends Object

Provides some methods to check significance of clusters for clustering algroithms. It is assumed that for each cluster there is a single latent that is a parent of all the nodes in the cluster. Significance of these models is returned.

Version:

$Id: $Id

Author:

josephramsey

Nested Class Summary

Nested Classes

Modifier and Type	Class	Description
static enum	ClusterSignificance.CheckType	Gives the options for checking significance of clusters--could check the significance using a regression model, or could check to see if the cluster is a clique, or could not do the check.

Constructor Summary

Constructors

Constructor	Description
ClusterSignificance(List<Node> variables, DataModel dataModel)	Constructs a new cluster significance object.

Method Summary

Modifier and Type	Method	Description
static List<Integer>	getInts(int[] indices)	Converts a list of indices into a list of Integers representing a cluster.
double	getModelPValue(List<List<Integer>> clusters)	Returns the p-value for the given cluster.
void	printClusterPValues(Set<List<Integer>> clusters)	Prints the p-values for the given clusters.
void	setCheckType(ClusterSignificance.CheckType checkType)	Sets the type of check to perform.
boolean	significant(List<Integer> cluster, double alpha)	Returns the p-value for the given cluster.
static List<Node>	variablesForIndices(List<Integer> cluster, List<Node> variables)	Converts a list of indices into a list of Nodes representing a cluster.
static List<List<Node>>	variablesForIndices2(Set<List<Integer>> clusters, List<Node> _variables)	Converts a list of indices into a list of Nodes representing a cluster.

Methods inherited from class java.lang.Object

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

Constructor Details

ClusterSignificance

public ClusterSignificance(List<Node> variables,
 DataModel dataModel)

Constructs a new cluster significance object.

Parameters:

variables - The variables in the model.

dataModel - The data model.

Method Details

variablesForIndices

public static List<Node> variablesForIndices(List<Integer> cluster,
 List<Node> variables)

Converts a list of indices into a list of Nodes representing a cluster.

Parameters:

cluster - The indices of the variables.

variables - The variables.

Returns:

The extracted node list.

variablesForIndices2

public static List<List<Node>> variablesForIndices2(Set<List<Integer>> clusters,
 List<Node> _variables)

Converts a list of indices into a list of Nodes representing a cluster.

Parameters:

clusters - The indices of the variables.

_variables - The variables.

Returns:

The extracted node list.

getInts

public static List<Integer> getInts(int[] indices)

Converts a list of indices into a list of Integers representing a cluster.

Parameters:

indices - The indices of the variables.

Returns:

The extracted index list.

printClusterPValues

public void printClusterPValues(Set<List<Integer>> clusters)

Prints the p-values for the given clusters.

Parameters:

clusters - The clusters.

setCheckType

public void setCheckType(ClusterSignificance.CheckType checkType)

Sets the type of check to perform.

Parameters:

checkType - The type of check.

See Also:

• ClusterSignificance.CheckType

significant

public boolean significant(List<Integer> cluster,
 double alpha)

Returns the p-value for the given cluster.

Parameters:

cluster - The cluster.

alpha - The alpha level.

Returns:

The p-value.

getModelPValue

public double getModelPValue(List<List<Integer>> clusters)

Returns the p-value for the given cluster.

Parameters:

clusters - The clusters.

Returns:

The p-value.