Commons Math example source code file (UnknownDistributionChiSquareTest.java)

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Java - Commons Math tags/keywords

chisquaretest, chisquaretest, illegalargumentexception, illegalargumentexception, mathexception, mathexception, unknowndistributionchisquaretest, unknowndistributionchisquaretest

The Commons Math UnknownDistributionChiSquareTest.java source code

/*
 * Licensed to the Apache Software Foundation (ASF) under one or more
 * contributor license agreements.  See the NOTICE file distributed with
 * this work for additional information regarding copyright ownership.
 * The ASF licenses this file to You under the Apache License, Version 2.0
 * (the "License"); you may not use this file except in compliance with
 * the License.  You may obtain a copy of the License at
 *
 *      http://www.apache.org/licenses/LICENSE-2.0
 *
 * Unless required by applicable law or agreed to in writing, software
 * distributed under the License is distributed on an "AS IS" BASIS,
 * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
 * See the License for the specific language governing permissions and
 * limitations under the License.
 */
package org.apache.commons.math.stat.inference;

import org.apache.commons.math.MathException;

/**
 * An interface for Chi-Square tests for unknown distributions.
 * <p>Two samples tests are used when the distribution is unknown a priori
 * but provided by one sample. We compare the second sample against the first.</p>
 *
 * @version $Revision: 811685 $ $Date: 2009-09-05 13:36:48 -0400 (Sat, 05 Sep 2009) $
 * @since 1.2
 */
public interface UnknownDistributionChiSquareTest extends ChiSquareTest {

    /**
     * <p>Computes a
     * <a href="http://www.itl.nist.gov/div898/software/dataplot/refman1/auxillar/chi2samp.htm">
     * Chi-Square two sample test statistic</a> comparing bin frequency counts
     * in <code>observed1 and observed2.  The
     * sums of frequency counts in the two samples are not required to be the
     * same.  The formula used to compute the test statistic is</p>
     * <code>
     * ?[(K * observed1[i] - observed2[i]/K)<sup>2 / (observed1[i] + observed2[i])]
     * </code> where
     * <br/>K = &sqrt;[&sum(observed2 / ?(observed1)]
     * </p>
     * <p>This statistic can be used to perform a Chi-Square test evaluating the null hypothesis that
     * both observed counts follow the same distribution.</p>
     * <p>
     * <strong>Preconditions: 

     * <li>Observed counts must be non-negative.
     * </li>
     * <li>Observed counts for a specific bin must not both be zero.
     * </li>
     * <li>Observed counts for a specific sample must not all be 0.
     * </li>
     * <li>The arrays observed1 and observed2 must have the same length and
     * their common length must be at least 2.
     * </li>

     * If any of the preconditions are not met, an
     * <code>IllegalArgumentException is thrown.
     *
     * @param observed1 array of observed frequency counts of the first data set
     * @param observed2 array of observed frequency counts of the second data set
     * @return chiSquare statistic
     * @throws IllegalArgumentException if preconditions are not met
     */
    double chiSquareDataSetsComparison(long[] observed1, long[] observed2)
        throws IllegalArgumentException;

    /**
     * <p>Returns the observed significance level, or  and
     * <code>observed2.
     * </p>
     * <p>The number returned is the smallest significance level at which one
     * can reject the null hypothesis that the observed counts conform to the
     * same distribution.
     * </p>
     * <p>See {@link #chiSquareDataSetsComparison(long[], long[])} for details
     * on the formula used to compute the test statistic. The degrees of
     * of freedom used to perform the test is one less than the common length
     * of the input observed count arrays.
     * </p>
     * <strong>Preconditions: 

     * <li>Observed counts must be non-negative.
     * </li>
     * <li>Observed counts for a specific bin must not both be zero.
     * </li>
     * <li>Observed counts for a specific sample must not all be 0.
     * </li>
     * <li>The arrays observed1 and observed2 must
     * have the same length and
     * their common length must be at least 2.
     * </li>

     * If any of the preconditions are not met, an
     * <code>IllegalArgumentException is thrown.
     *
     * @param observed1 array of observed frequency counts of the first data set
     * @param observed2 array of observed frequency counts of the second data set
     * @return p-value
     * @throws IllegalArgumentException if preconditions are not met
     * @throws MathException if an error occurs computing the p-value
     */
    double chiSquareTestDataSetsComparison(long[] observed1, long[] observed2)
      throws IllegalArgumentException, MathException;

    /**
     * <p>Performs a Chi-Square two sample test comparing two binned data
     * sets. The test evaluates the null hypothesis that the two lists of
     * observed counts conform to the same frequency distribution, with
     * significance level <code>alpha.  Returns true iff the null
     * hypothesis can be rejected with 100 * (1 - alpha) percent confidence.
     * </p>
     * <p>See {@link #chiSquareDataSetsComparison(long[], long[])} for
     * details on the formula used to compute the Chisquare statistic used
     * in the test. The degrees of of freedom used to perform the test is
     * one less than the common length of the input observed count arrays.
     * </p>
     * <strong>Preconditions: 

     * <li>Observed counts must be non-negative.
     * </li>
     * <li>Observed counts for a specific bin must not both be zero.
     * </li>
     * <li>Observed counts for a specific sample must not all be 0.
     * </li>
     * <li>The arrays observed1 and observed2 must
     * have the same length and their common length must be at least 2.
     * </li>
     * <li>  0 < alpha < 0.5 
     * </li>

     * If any of the preconditions are not met, an
     * <code>IllegalArgumentException is thrown.
     *
     * @param observed1 array of observed frequency counts of the first data set
     * @param observed2 array of observed frequency counts of the second data set
     * @param alpha significance level of the test
     * @return true iff null hypothesis can be rejected with confidence
     * 1 - alpha
     * @throws IllegalArgumentException if preconditions are not met
     * @throws MathException if an error occurs performing the test
     */
    boolean chiSquareTestDataSetsComparison(long[] observed1, long[] observed2, double alpha)
      throws IllegalArgumentException, MathException;

}