java.lang.Object
- java.lang.Thread
- - gov.nih.mipav.model.algorithms.AlgorithmBase
  - - gov.nih.mipav.model.algorithms.AlgorithmMixGaussEM

All Implemented Interfaces:

java.awt.event.ActionListener, java.awt.event.WindowListener, java.lang.Runnable, java.util.EventListener
```
public class AlgorithmMixGaussEM
extends AlgorithmBase
```
Author:

aailb Copyright (c) 2016, Mo Chen All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution Neither the name of nor the names of its contributors may be used to endorse or promote products derived from this software without specific prior written permission. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.

Nested Class Summary

Nested Classes
Modifier and Type Class Description

(package private) class AlgorithmMixGaussEM.model
- Nested classes/interfaces inherited from class java.lang.Thread
  java.lang.Thread.State, java.lang.Thread.UncaughtExceptionHandler

Field Summary

Fields
Modifier and Type	Field	Description
`private int`	`iter`
`private int[]`	`label`
`private double[]`	`llh`
`private AlgorithmMixGaussEM.model`	`mixGaussOut`
`(package private) RandomNumberGen`	`randomGen`
`private double[][]`	`X`

Fields inherited from class gov.nih.mipav.model.algorithms.AlgorithmBase
destFlag, destImage, image25D, mask, maxProgressValue, minProgressValue, multiThreadingEnabled, nthreads, progress, progressModulus, progressStep, runningInSeparateThread, separable, srcImage, threadStopped

Fields inherited from class java.lang.Thread
MAX_PRIORITY, MIN_PRIORITY, NORM_PRIORITY

Constructor Summary

Constructors
Constructor Description

AlgorithmMixGaussEM()

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`double[]`	`dirichletRnd(double ain, double[] m)`
`int[]`	`discreteRnd(double[] pin, int n)`
`private double[][]`	`expectation(double[][] X, AlgorithmMixGaussEM.model mod)`
`double`	`gamrnd(double a, double b)`
`private double[]`	`gaussRnd(double[] mu, double[][] Sigma)`
`private double[][]`	`gaussRnd(double[] mu, double[][] Sigma, int n)`
`private double[][]`	`initialization(double[][] X, int init)`
`private double[][]`	`initialization(double[][] X, int[] init)`
`private double[][]`	`initialization(double[][] X, AlgorithmMixGaussEM.model init)`
`private double[]`	`loggausspdf(double[][] Xin, double[] mu, double[][] Sigma)`
`double[]`	`logsumexp(double[][] ain, int dim)`
`private AlgorithmMixGaussEM.model`	`maximization(double[][] X, double[][] R)`
`private void`	`mixGaussEm(double[][] X, int init)`
`void`	`mixGaussEm_demo()`
`private void`	`mixGaussPred(double[][] R, double[][] X, AlgorithmMixGaussEM.model mod)`
`void`	`mixGaussRnd(int d, int k, int n)`
`private void`	`plot(double[] llh)`
`private void`	`plotClass(double[][] X, int[] label, java.lang.String title)`
`void`	`runAlgorithm()`	Actually runs the algorithm.
`void`	`test_dirichletRnd()`
`void`	`test_discreteRnd()`
`void`	`test_gamrnd()`
`void`	`test_gaussRnd()`
`void`	`test_gaussRnd2()`

Methods inherited from class gov.nih.mipav.model.algorithms.AlgorithmBase
actionPerformed, addListener, addProgressChangeListener, calculateImageSize, calculatePrincipleAxis, computeElapsedTime, computeElapsedTime, convertIntoFloat, delinkProgressToAlgorithm, delinkProgressToAlgorithmMulti, displayError, errorCleanUp, finalize, fireProgressStateChanged, fireProgressStateChanged, fireProgressStateChanged, fireProgressStateChanged, fireProgressStateChanged, generateProgressValues, getDestImage, getElapsedTime, getMask, getMaxProgressValue, getMinProgressValue, getNumberOfThreads, getProgress, getProgressChangeListener, getProgressChangeListeners, getProgressModulus, getProgressStep, getProgressValues, getSrcImage, isCompleted, isImage25D, isMultiThreadingEnabled, isRunningInSeparateThread, isThreadStopped, linkProgressToAlgorithm, linkProgressToAlgorithm, makeProgress, notifyListeners, removeListener, removeProgressChangeListener, run, setCompleted, setImage25D, setMask, setMaxProgressValue, setMinProgressValue, setMultiThreadingEnabled, setNumberOfThreads, setProgress, setProgressModulus, setProgressStep, setProgressValues, setProgressValues, setRunningInSeparateThread, setSrcImage, setStartTime, setThreadStopped, startMethod, windowActivated, windowClosed, windowClosing, windowDeactivated, windowDeiconified, windowIconified, windowOpened

Methods inherited from class java.lang.Thread
activeCount, checkAccess, clone, countStackFrames, currentThread, dumpStack, enumerate, getAllStackTraces, getContextClassLoader, getDefaultUncaughtExceptionHandler, getId, getName, getPriority, getStackTrace, getState, getThreadGroup, getUncaughtExceptionHandler, holdsLock, interrupt, interrupted, isAlive, isDaemon, isInterrupted, join, join, join, onSpinWait, resume, setContextClassLoader, setDaemon, setDefaultUncaughtExceptionHandler, setName, setPriority, setUncaughtExceptionHandler, sleep, sleep, start, stop, suspend, toString, yield

Methods inherited from class java.lang.Object
equals, getClass, hashCode, notify, notifyAll, wait, wait, wait

Field Detail

X
```
private double[][] X
```

label
```
private int[] label
```

mixGaussOut

private AlgorithmMixGaussEM.model mixGaussOut

llh
```
private double[] llh
```

iter
```
private int iter
```

randomGen
```
RandomNumberGen randomGen
```

Constructor Detail
- AlgorithmMixGaussEM
```
public AlgorithmMixGaussEM()
```

Method Detail

runAlgorithm
```
public void runAlgorithm()
```
Description copied from class: AlgorithmBase

Actually runs the algorithm. Implemented by inheriting algorithms.

Specified by:

runAlgorithm in class AlgorithmBase

mixGaussEm_demo
```
public void mixGaussEm_demo()
```

mixGaussRnd

public void mixGaussRnd(int d,
                        int k,
                        int n)

test_discreteRnd
```
public void test_discreteRnd()
```

discreteRnd

public int[] discreteRnd(double[] pin,
                         int n)

test_dirichletRnd
```
public void test_dirichletRnd()
```

dirichletRnd

public double[] dirichletRnd(double ain,
                             double[] m)

test_gamrnd
```
public void test_gamrnd()
```

gamrnd

public double gamrnd(double a,
                     double b)

test_gaussRnd2
```
public void test_gaussRnd2()
```

gaussRnd

private double[] gaussRnd(double[] mu,
                          double[][] Sigma)

test_gaussRnd
```
public void test_gaussRnd()
```

gaussRnd

private double[][] gaussRnd(double[] mu,
                            double[][] Sigma,
                            int n)

plotClass

private void plotClass(double[][] X,
                       int[] label,
                       java.lang.String title)

mixGaussPred

private void mixGaussPred(double[][] R,
                          double[][] X,
                          AlgorithmMixGaussEM.model mod)

mixGaussEm

private void mixGaussEm(double[][] X,
                        int init)

initialization

private double[][] initialization(double[][] X,
                                  int init)

initialization

private double[][] initialization(double[][] X,
                                  int[] init)

initialization

private double[][] initialization(double[][] X,
                                  AlgorithmMixGaussEM.model init)

expectation

private double[][] expectation(double[][] X,
                               AlgorithmMixGaussEM.model mod)

loggausspdf

private double[] loggausspdf(double[][] Xin,
                             double[] mu,
                             double[][] Sigma)

maximization

private AlgorithmMixGaussEM.model maximization(double[][] X,
                                               double[][] R)

plot
```
private void plot(double[] llh)
```

logsumexp

public double[] logsumexp(double[][] ain,
                          int dim)

Class AlgorithmMixGaussEM

Nested Class Summary

Nested classes/interfaces inherited from class java.lang.Thread

Field Summary

Fields inherited from class gov.nih.mipav.model.algorithms.AlgorithmBase

Fields inherited from class java.lang.Thread

Constructor Summary

Method Summary

Methods inherited from class gov.nih.mipav.model.algorithms.AlgorithmBase

Methods inherited from class java.lang.Thread

Methods inherited from class java.lang.Object

Field Detail

X

label

mixGaussOut

llh

iter

randomGen

Constructor Detail

AlgorithmMixGaussEM

Method Detail

runAlgorithm

mixGaussEm_demo

mixGaussRnd

test_discreteRnd

discreteRnd

test_dirichletRnd

dirichletRnd

test_gamrnd

gamrnd

test_gaussRnd2

gaussRnd

test_gaussRnd

gaussRnd

plotClass

mixGaussPred

mixGaussEm

initialization

initialization

initialization

expectation

loggausspdf

maximization

plot

logsumexp