de.jstacs.utils
Class PFMComparator.SymmetricKullbackLeiblerDivergence

java.lang.Object
  de.jstacs.utils.PFMComparator.PFMDistance
      de.jstacs.utils.PFMComparator.SymmetricKullbackLeiblerDivergence

Enclosing class:

PFMComparator

public static class PFMComparator.SymmetricKullbackLeiblerDivergence
extends PFMComparator.PFMDistance

This class implements the symmetric Kullback-Leibler-divergence.

Author:

Jens Keilwagen

Constructor Summary

PFMComparator.SymmetricKullbackLeiblerDivergence(double ess)
This constructor creates a new instance with a given value for the equivalent sample size.

Method Summary

protected double

getDistance(double[][] pfm1, double[][] pfm2, int l1, int l2) Computes the mean distance between the overlapping parts of pfm1 and pfm2 starting at the offsets l1 and l2, respectively.

Methods inherited from class de.jstacs.utils.PFMComparator.PFMDistance

compare, getDistance

Methods inherited from class java.lang.Object

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

Constructor Detail

PFMComparator.SymmetricKullbackLeiblerDivergence

public PFMComparator.SymmetricKullbackLeiblerDivergence(double ess)
                                                 throws IllegalArgumentException

This constructor creates a new instance with a given value for the equivalent sample size.

Parameters:

ess - the equivalent sample size

Throws:

IllegalArgumentException - if the ess < 0

Method Detail

getDistance

protected double getDistance(double[][] pfm1,
                             double[][] pfm2,
                             int l1,
                             int l2)

Description copied from class: PFMComparator.PFMDistance

Computes the mean distance between the overlapping parts of pfm1 and pfm2 starting at the offsets l1 and l2, respectively.

Specified by:

getDistance in class PFMComparator.PFMDistance

Parameters:

pfm1 - the first PFM

pfm2 - the second PFM

l1 - the offset for the first PFM

l2 - the offset for the second PFM

Returns:

the mean distance of the overlapping part