weka.clusterers

## Class ClusterEvaluation

- java.lang.Object
- - weka.clusterers.ClusterEvaluation

- All Implemented Interfaces:
    java.io.Serializable, RevisionHandler

      public class ClusterEvaluation
      extends java.lang.Object
      implements java.io.Serializable, RevisionHandler

  Class for evaluating clustering models.

  Valid options are:

  -t name of the training file
  Specify the training file.

  -T name of the test file
  Specify the test file to apply clusterer to.

  -force-batch-training
  Always train the clusterer in batch mode, never incrementally.

  -d name of file to save clustering model to
  Specify output file.

  -l name of file to load clustering model from
  Specifiy input file.

  -p attribute range
  Output predictions. Predictions are for the training file if only the training file is specified, otherwise they are for the test file. The range specifies attribute values to be output with the predictions. Use '-p 0' for none.

  -x num folds
  Set the number of folds for a cross validation of the training data. Cross validation can only be done for distribution clusterers and will be performed if the test file is missing.

  -s num
  Sets the seed for randomizing the data for cross-validation.

  -c class
  Set the class attribute. If set, then class based evaluation of clustering is performed.

  -g name of graph file
  Outputs the graph representation of the clusterer to the file. Only for clusterer that implemented the `weka.core.Drawable` interface.

  Version:
    $Revision: 10439 $
  Author:
    Mark Hall (mhall@cs.waikato.ac.nz)
  See Also:
    `Drawable`, Serialized Form

- - ### Constructor Summary

    Constructors
    Constructor and Description
    `ClusterEvaluation()` Constructor.

  - ### Method Summary

    Methods
    Modifier and Type | Method and Description
    --- | ---
    `java.lang.String` | `clusterResultsToString()` return the results of clustering.
    `static double` | `crossValidateModel(DensityBasedClusterer clusterer, Instances data, int numFolds, java.util.Random random)` Perform a cross-validation for DensityBasedClusterer on a set of instances.
    `static java.lang.String` | `crossValidateModel(java.lang.String clustererString, Instances data, int numFolds, java.lang.String[] options, java.util.Random random)` Performs a cross-validation for a DensityBasedClusterer clusterer on a set of instances.
    `boolean` | `equals(java.lang.Object obj)` Tests whether the current evaluation object is equal to another evaluation object
    `static java.lang.String` | `evaluateClusterer(Clusterer clusterer, java.lang.String[] options)` Evaluates a clusterer with the options given in an array of strings.
    `void` | `evaluateClusterer(Instances test)` Evaluate the clusterer on a set of instances.
    `void` | `evaluateClusterer(Instances test, java.lang.String testFileName)` Evaluate the clusterer on a set of instances.
    `void` | `evaluateClusterer(Instances test, java.lang.String testFileName, boolean outputModel)` Evaluate the clusterer on a set of instances.
    `int[]` | `getClassesToClusters()` Return the array (ordered by cluster number) of minimum error class to cluster mappings
    `double[]` | `getClusterAssignments()` Return an array of cluster assignments corresponding to the most recent set of instances clustered.
    `double` | `getLogLikelihood()` Return the log likelihood corresponding to the most recent set of instances clustered.
    `int` | `getNumClusters()` Return the number of clusters found for the most recent call to evaluateClusterer
    `java.lang.String` | `getRevision()` Returns the revision string.
    `static void` | `main(java.lang.String[] args)` Main method for testing this class.
    `static void` | `mapClasses(int numClusters, int lev, int[][] counts, int[] clusterTotals, double[] current, double[] best, int error)` Finds the minimum error mapping of classes to clusters.
    `void` | `setClusterer(Clusterer clusterer)` set the clusterer

    - ### Methods inherited from class java.lang.Object

      `getClass, hashCode, notify, notifyAll, toString, wait, wait, wait`

- - ### Constructor Detail

    - #### ClusterEvaluation

          public ClusterEvaluation()

      Constructor. Sets defaults for each member variable. Default Clusterer is EM.

  - ### Method Detail

    - #### setClusterer

          public void setClusterer(Clusterer clusterer)

      set the clusterer
      Parameters:
        `clusterer` - the clusterer to use

    - #### clusterResultsToString

          public java.lang.String clusterResultsToString()

      return the results of clustering.
      Returns:
        a string detailing the results of clustering a data set

    - #### getNumClusters

          public int getNumClusters()

      Return the number of clusters found for the most recent call to evaluateClusterer
      Returns:
        the number of clusters found

    - #### getClusterAssignments

          public double[] getClusterAssignments()

      Return an array of cluster assignments corresponding to the most recent set of instances clustered.
      Returns:
        an array of cluster assignments

    - #### getClassesToClusters

          public int[] getClassesToClusters()

      Return the array (ordered by cluster number) of minimum error class to cluster mappings
      Returns:
        an array of class to cluster mappings

    - #### getLogLikelihood

          public double getLogLikelihood()

      Return the log likelihood corresponding to the most recent set of instances clustered.
      Returns:
        a `double` value

    - #### evaluateClusterer

          public void evaluateClusterer(Instances test)
                                 throws java.lang.Exception

      Evaluate the clusterer on a set of instances. Calculates clustering statistics and stores cluster assigments for the instances in m_clusterAssignments
      Parameters:
        `test` - the set of instances to cluster
      Throws:
        `java.lang.Exception` - if something goes wrong

    - #### evaluateClusterer

          public void evaluateClusterer(Instances test,
                               java.lang.String testFileName)
                                 throws java.lang.Exception

      Evaluate the clusterer on a set of instances. Calculates clustering statistics and stores cluster assigments for the instances in m_clusterAssignments
      Parameters:
        `test` - the set of instances to cluster
        `testFileName` - the name of the test file for incremental testing, if "" or null then not used
      Throws:
        `java.lang.Exception` - if something goes wrong

    - #### evaluateClusterer

          public void evaluateClusterer(Instances test,
                               java.lang.String testFileName,
                               boolean outputModel)
                                 throws java.lang.Exception

      Evaluate the clusterer on a set of instances. Calculates clustering statistics and stores cluster assigments for the instances in m_clusterAssignments
      Parameters:
        `test` - the set of instances to cluster
        `testFileName` - the name of the test file for incremental testing, if "" or null then not used
        `outputModel` - true if the clustering model is to be output as well as the stats
      Throws:
        `java.lang.Exception` - if something goes wrong

    - #### mapClasses

          public static void mapClasses(int numClusters,
                        int lev,
                        int[][] counts,
                        int[] clusterTotals,
                        double[] current,
                        double[] best,
                        int error)

      Finds the minimum error mapping of classes to clusters. Recursively considers all possible class to cluster assignments.
      Parameters:
        `numClusters` - the number of clusters
        `lev` - the cluster being processed
        `counts` - the counts of classes in clusters
        `clusterTotals` - the total number of examples in each cluster
        `current` - the current path through the class to cluster assignment tree
        `best` - the best assignment path seen
        `error` - accumulates the error for a particular path

    - #### evaluateClusterer

          public static java.lang.String evaluateClusterer(Clusterer clusterer,
                                           java.lang.String[] options)
                                                    throws java.lang.Exception

      Evaluates a clusterer with the options given in an array of strings. It takes the string indicated by "-t" as training file, the string indicated by "-T" as test file. If the test file is missing, a stratified ten-fold cross-validation is performed (distribution clusterers only). Using "-x" you can change the number of folds to be used, and using "-s" the random seed. If the "-p" option is present it outputs the classification for each test instance. If you provide the name of an object file using "-l", a clusterer will be loaded from the given file. If you provide the name of an object file using "-d", the clusterer built from the training data will be saved to the given file.
      Parameters:
        `clusterer` - machine learning clusterer
        `options` - the array of string containing the options
      Returns:
        a string describing the results
      Throws:
        `java.lang.Exception` - if model could not be evaluated successfully

    - #### crossValidateModel

          public static double crossValidateModel(DensityBasedClusterer clusterer,
                                  Instances data,
                                  int numFolds,
                                  java.util.Random random)
                                           throws java.lang.Exception

      Perform a cross-validation for DensityBasedClusterer on a set of instances.
      Parameters:
        `clusterer` - the clusterer to use
        `data` - the training data
        `numFolds` - number of folds of cross validation to perform
        `random` - random number seed for cross-validation
      Returns:
        the cross-validated log-likelihood
      Throws:
        `java.lang.Exception` - if an error occurs

    - #### crossValidateModel

          public static java.lang.String crossValidateModel(java.lang.String clustererString,
                                            Instances data,
                                            int numFolds,
                                            java.lang.String[] options,
                                            java.util.Random random)
                                                     throws java.lang.Exception

      Performs a cross-validation for a DensityBasedClusterer clusterer on a set of instances.
      Parameters:
        `clustererString` - a string naming the class of the clusterer
        `data` - the data on which the cross-validation is to be performed
        `numFolds` - the number of folds for the cross-validation
        `options` - the options to the clusterer
        `random` - a random number generator
      Returns:
        a string containing the cross validated log likelihood
      Throws:
        `java.lang.Exception` - if a clusterer could not be generated

    - #### equals

          public boolean equals(java.lang.Object obj)

      Tests whether the current evaluation object is equal to another evaluation object
      Overrides:
        `equals` in class `java.lang.Object`
      Parameters:
        `obj` - the object to compare against
      Returns:
        true if the two objects are equal

    - #### getRevision

          public java.lang.String getRevision()

      Returns the revision string.
      Specified by:
        `getRevision` in interface `RevisionHandler`
      Returns:
        the revision

    - #### main

          public static void main(java.lang.String[] args)

      Main method for testing this class.
      Parameters:
        `args` - the options