org.deeplearning4j.plot

Class LegacyTsne

java.lang.Object

org.deeplearning4j.plot.LegacyTsne

All Implemented Interfaces:

Serializable

Deprecated.

@Deprecated
public class LegacyTsne
extends Object
implements Serializable

Tsne calculation

Author:

Adam Gibson

See Also:

Serialized Form

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	LegacyTsne.Builder Deprecated.

Field Summary

Fields

Modifier and Type	Field and Description
protected org.nd4j.linalg.learning.AdaGrad	adaGrad Deprecated.
protected double	finalMomentum Deprecated.
protected org.nd4j.linalg.api.ndarray.INDArray	gains Deprecated.
protected double	initialMomentum Deprecated.
protected IterationListener	iterationListener Deprecated.
protected double	learningRate Deprecated.
protected static org.slf4j.Logger	log Deprecated.
protected int	maxIter Deprecated.
protected double	minGain Deprecated.
protected double	momentum Deprecated.
protected boolean	normalize Deprecated.
protected double	perplexity Deprecated.
protected static org.nd4j.linalg.io.ClassPathResource	r Deprecated.
protected double	realMin Deprecated.
protected int	stopLyingIteration Deprecated.
protected int	switchMomentumIteration Deprecated.
protected double	tolerance Deprecated.
protected boolean	useAdaGrad Deprecated.
protected boolean	usePca Deprecated.
protected org.nd4j.linalg.api.ndarray.INDArray	y Deprecated.
protected org.nd4j.linalg.api.ndarray.INDArray	yIncs Deprecated.

Constructor Summary

Constructors

Constructor and Description
LegacyTsne() Deprecated.
LegacyTsne(int maxIter, double realMin, double initialMomentum, double finalMomentum, double momentum, int switchMomentumIteration, boolean normalize, boolean usePca, int stopLyingIteration, double tolerance, double learningRate, boolean useAdaGrad, double perplexity, double minGain) Deprecated.

Method Summary

Modifier and Type	Method and Description
org.nd4j.linalg.api.ndarray.INDArray	calculate(org.nd4j.linalg.api.ndarray.INDArray X, int nDims, double perplexity) Deprecated.
org.nd4j.linalg.api.ndarray.INDArray	computeGaussianPerplexity(org.nd4j.linalg.api.ndarray.INDArray d, double u) Deprecated. Convert data to probability co-occurrences (aka calculating the kernel)
org.nd4j.linalg.api.ndarray.INDArray	diag(org.nd4j.linalg.api.ndarray.INDArray ds) Deprecated.
IterationListener	getIterationListener() Deprecated.
org.nd4j.linalg.api.ndarray.INDArray	getY() Deprecated.
org.nd4j.linalg.api.ndarray.INDArray	getYGradient(int n, org.nd4j.linalg.api.ndarray.INDArray PQ, org.nd4j.linalg.api.ndarray.INDArray qu) Deprecated.
protected Pair<Double,org.nd4j.linalg.api.ndarray.INDArray>	gradient(org.nd4j.linalg.api.ndarray.INDArray p) Deprecated.
Pair<org.nd4j.linalg.api.ndarray.INDArray,org.nd4j.linalg.api.ndarray.INDArray>	hBeta(org.nd4j.linalg.api.ndarray.INDArray d, double beta) Deprecated. Computes a gaussian kernel given a vector of squared distance distances
void	plot(org.nd4j.linalg.api.ndarray.INDArray matrix, int nDims, List<String> labels) Deprecated. Plot tsne (write the coordinates file)
void	plot(org.nd4j.linalg.api.ndarray.INDArray matrix, int nDims, List<String> labels, String path) Deprecated. Plot tsne
void	setIterationListener(IterationListener iterationListener) Deprecated.
void	setY(org.nd4j.linalg.api.ndarray.INDArray y) Deprecated.
void	step(org.nd4j.linalg.api.ndarray.INDArray p, int i) Deprecated. An individual iteration

Methods inherited from class java.lang.Object

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

Field Detail

maxIter

protected int maxIter

Deprecated.

realMin

protected double realMin

Deprecated.

initialMomentum

protected double initialMomentum

Deprecated.

finalMomentum

protected double finalMomentum

Deprecated.

minGain

protected double minGain

Deprecated.

momentum

protected double momentum

Deprecated.

switchMomentumIteration

protected int switchMomentumIteration

Deprecated.

normalize

protected boolean normalize

Deprecated.

usePca

protected boolean usePca

Deprecated.

stopLyingIteration

protected int stopLyingIteration

Deprecated.

tolerance

protected double tolerance

Deprecated.

learningRate

protected double learningRate

Deprecated.

adaGrad

protected org.nd4j.linalg.learning.AdaGrad adaGrad

Deprecated.

useAdaGrad

protected boolean useAdaGrad

Deprecated.

perplexity

protected double perplexity

Deprecated.

gains

protected org.nd4j.linalg.api.ndarray.INDArray gains

Deprecated.

yIncs

protected org.nd4j.linalg.api.ndarray.INDArray yIncs

Deprecated.

y

protected org.nd4j.linalg.api.ndarray.INDArray y

Deprecated.

iterationListener

protected transient IterationListener iterationListener

Deprecated.

r

protected static org.nd4j.linalg.io.ClassPathResource r

Deprecated.

log

protected static final org.slf4j.Logger log

Deprecated.

Constructor Detail

LegacyTsne

public LegacyTsne()

Deprecated.

LegacyTsne

public LegacyTsne(int maxIter,
                  double realMin,
                  double initialMomentum,
                  double finalMomentum,
                  double momentum,
                  int switchMomentumIteration,
                  boolean normalize,
                  boolean usePca,
                  int stopLyingIteration,
                  double tolerance,
                  double learningRate,
                  boolean useAdaGrad,
                  double perplexity,
                  double minGain)

Deprecated.

Method Detail

hBeta

public Pair<org.nd4j.linalg.api.ndarray.INDArray,org.nd4j.linalg.api.ndarray.INDArray> hBeta(org.nd4j.linalg.api.ndarray.INDArray d,
                                                                                             double beta)

Deprecated.

Computes a gaussian kernel given a vector of squared distance distances

Parameters:

d - the data

beta -

Returns:

computeGaussianPerplexity

public org.nd4j.linalg.api.ndarray.INDArray computeGaussianPerplexity(org.nd4j.linalg.api.ndarray.INDArray d,
                                                                      double u)

Deprecated.

Convert data to probability co-occurrences (aka calculating the kernel)

Parameters:

d - the data to convert

u - the perplexity of the model

Returns:

the probabilities of co-occurrence

calculate

public org.nd4j.linalg.api.ndarray.INDArray calculate(org.nd4j.linalg.api.ndarray.INDArray X,
                                                      int nDims,
                                                      double perplexity)

Deprecated.

Parameters:

X -

nDims -

perplexity -

gradient

protected Pair<Double,org.nd4j.linalg.api.ndarray.INDArray> gradient(org.nd4j.linalg.api.ndarray.INDArray p)

Deprecated.

getYGradient

public org.nd4j.linalg.api.ndarray.INDArray getYGradient(int n,
                                                         org.nd4j.linalg.api.ndarray.INDArray PQ,
                                                         org.nd4j.linalg.api.ndarray.INDArray qu)

Deprecated.

step

public void step(org.nd4j.linalg.api.ndarray.INDArray p,
                 int i)

Deprecated.

An individual iteration

Parameters:

p - the probabilities that certain points are near each other

i - the iteration (primarily for debugging purposes)

plot

public void plot(org.nd4j.linalg.api.ndarray.INDArray matrix,
                 int nDims,
                 List<String> labels)
          throws IOException

Deprecated.

Plot tsne (write the coordinates file)

Parameters:

matrix - the matrix to plot

nDims - the number of dimensions

labels -

Throws:

IOException

plot

public void plot(org.nd4j.linalg.api.ndarray.INDArray matrix,
                 int nDims,
                 List<String> labels,
                 String path)
          throws IOException

Deprecated.

Plot tsne

Parameters:

matrix - the matrix to plot

nDims - the number

labels -

path - the path to write

Throws:

IOException

getY

public org.nd4j.linalg.api.ndarray.INDArray getY()

Deprecated.

setY

public void setY(org.nd4j.linalg.api.ndarray.INDArray y)

Deprecated.

getIterationListener

public IterationListener getIterationListener()

Deprecated.

setIterationListener

public void setIterationListener(IterationListener iterationListener)

Deprecated.

diag

public org.nd4j.linalg.api.ndarray.INDArray diag(org.nd4j.linalg.api.ndarray.INDArray ds)

Deprecated.