org.simbrain.gauge.core
Class ProjectSammon

java.lang.Object
  org.simbrain.gauge.core.Projector
      org.simbrain.gauge.core.ProjectSammon

public class ProjectSammon
extends Projector

ProjectSammon.java Implements gradient descent to compute image of Sammon projection.

Field Summary

Fields inherited from class org.simbrain.gauge.core.Projector

addMethod, downstairs, theSettings, upstairs

Constructor Summary

ProjectSammon()
Default sammon projector constructor.

ProjectSammon(Settings set)
Sammon projector constructor.

Method Summary

(package private) double	getCurrentCloseness()
(package private) double[][]	getD()
(package private) double[][]	getDstar()
(package private) double	getDstarSum()
(package private) double	getE()
double	getEpsilon()
(package private) int	getHighDimension()
(package private) int	getLowDimension()
(package private) int	getNumPoints()
(package private) double	getPartialSum()
(package private) double[]	getXI()
(package private) double[]	getXJ()
(package private) ArrayList	getYArray()
(package private) double[]	getYI()
(package private) double[]	getYJ()
(package private) double[]	getYM()
(package private) double[]	getYN()
(package private) double[]	getYNew()
boolean	hasDialog()
void	init(Dataset up, Dataset down) Perform necessary initialization.
boolean	isExtendable()
boolean	isIterable()
double	iterate() Iterate the Sammon algorithm and return currentCloseness.
void	project() Default projection constructor.
(package private) void	setCurrentCloseness(double currentCloseness)
(package private) void	setD(double[][] d)
(package private) void	setDstar(double[][] dstar)
(package private) void	setDstarSum(double dstarSum)
(package private) void	setE(double e)
void	setEpsilon(double d)
(package private) void	setHighDimension(int highDimension)
(package private) void	setLowDimension(int lowDimension)
(package private) void	setNumPoints(int numPoints)
(package private) void	setPartialSum(double partSum)
(package private) void	setXI(double[] xI)
(package private) void	setXJ(double[] xJ)
(package private) void	setYArray(ArrayList y)
(package private) void	setYI(double[] yI)
(package private) void	setYJ(double[] yJ)
(package private) void	setYM(double[] yM)
(package private) void	setYN(double[] yN)
(package private) void	setYNew(double[] yNew)

Methods inherited from class org.simbrain.gauge.core.Projector

addDatapoint, addUpstairs, checkDatasets, compareDatasets, getAddMethod, getAddMethodIndex, getDownstairs, getPerturbationAmount, getTheSettings, getTolerance, getUpstairs, init, setAddMethod, setDownstairs, setPerturbationAmount, setTheSettings, setTolerance, setUpstairs

Methods inherited from class java.lang.Object

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

Constructor Detail

ProjectSammon

public ProjectSammon()

Default sammon projector constructor.

ProjectSammon

public ProjectSammon(Settings set)

Sammon projector constructor.

Parameters:

set - projector settings

Method Detail

init

public void init(Dataset up,
                 Dataset down)

Perform necessary initialization.

Overrides:

init in class Projector

Parameters:

up - Upstairs dataset

down - Downstairs dataset

iterate

public double iterate()

Iterate the Sammon algorithm and return currentCloseness.

Specified by:

iterate in class Projector

Returns:

closeness of points

isIterable

public boolean isIterable()

Specified by:

isIterable in class Projector

Returns:

is projection iterable.

isExtendable

public boolean isExtendable()

Specified by:

isExtendable in class Projector

Returns:

is projection extendable.

project

public void project()

Default projection constructor.

Specified by:

project in class Projector

getEpsilon

public double getEpsilon()

Returns:

step size for Sammon map

setEpsilon

public void setEpsilon(double d)

Parameters:

d - step size for Sammon map

setYArray

void setYArray(ArrayList y)

Parameters:

y - The yArray to set.

getYArray

ArrayList getYArray()

Returns:

Returns the yArray.

setXI

void setXI(double[] xI)

Parameters:

xI - The xI to set.

getXI

double[] getXI()

Returns:

Returns the xI.

setXJ

void setXJ(double[] xJ)

Parameters:

xJ - The xJ to set.

getXJ

double[] getXJ()

Returns:

Returns the xJ.

setYI

void setYI(double[] yI)

Parameters:

yI - The yI to set.

getYI

double[] getYI()

Returns:

Returns the yI.

setYJ

void setYJ(double[] yJ)

Parameters:

yJ - The yJ to set.

getYJ

double[] getYJ()

Returns:

Returns the yJ.

setYM

void setYM(double[] yM)

Parameters:

yM - The yM to set.

getYM

double[] getYM()

Returns:

Returns the yM.

setYN

void setYN(double[] yN)

Parameters:

yN - The yN to set.

getYN

double[] getYN()

Returns:

Returns the yN.

setYNew

void setYNew(double[] yNew)

Parameters:

yNew - The yNew to set.

getYNew

double[] getYNew()

Returns:

Returns the yNew.

setDstar

void setDstar(double[][] dstar)

Parameters:

dstar - The dstar to set.

getDstar

double[][] getDstar()

Returns:

Returns the dstar.

setD

void setD(double[][] d)

Parameters:

d - The d to set.

getD

double[][] getD()

Returns:

Returns the d.

setDstarSum

void setDstarSum(double dstarSum)

Parameters:

dstarSum - The dstarSum to set.

getDstarSum

double getDstarSum()

Returns:

Returns the dstarSum.

setPartialSum

void setPartialSum(double partSum)

Parameters:

partSum - The partSum to set.

getPartialSum

double getPartialSum()

Returns:

Returns the partSum.

setCurrentCloseness

void setCurrentCloseness(double currentCloseness)

Parameters:

currentCloseness - The currentCloseness to set.

getCurrentCloseness

double getCurrentCloseness()

Returns:

Returns the currentCloseness.

setE

void setE(double e)

Parameters:

e - The e to set.

getE

double getE()

Returns:

Returns the e.

setLowDimension

void setLowDimension(int lowDimension)

Parameters:

lowDimension - The lowDimension to set.

getLowDimension

int getLowDimension()

Returns:

Returns the lowDimension.

setNumPoints

void setNumPoints(int numPoints)

Parameters:

numPoints - The numPoints to set.

getNumPoints

int getNumPoints()

Returns:

Returns the numPoints.

setHighDimension

void setHighDimension(int highDimension)

Parameters:

highDimension - The highDimension to set.

getHighDimension

int getHighDimension()

Returns:

Returns the highDimension.

hasDialog

public boolean hasDialog()

Specified by:

hasDialog in class Projector

Returns:

true true if current projector has a dialog.

See Also:

Projector