Index

A C D E F G I R S
All Classes and Interfaces|All Packages|Constant Field Values|Serialized Form

A

Art2aAbstractResult - Class in de.unijena.cheminf.clustering.art2a.abstractResult

Abstract class.

Art2aAbstractResult(int, int, int[], ConcurrentLinkedQueue<String>, ConcurrentLinkedQueue<String>) - Constructor for class de.unijena.cheminf.clustering.art2a.abstractResult.Art2aAbstractResult

Constructor.

Art2aClusteringTask - Class in de.unijena.cheminf.clustering.art2a

Callable class for clustering input vectors (fingerprints).

Art2aClusteringTask(double, double[][], int, boolean) - Constructor for class de.unijena.cheminf.clustering.art2a.Art2aClusteringTask

Double clustering task constructor.

Art2aClusteringTask(double, double[][], int, boolean, double, double) - Constructor for class de.unijena.cheminf.clustering.art2a.Art2aClusteringTask

Double clustering task constructor.

Art2aClusteringTask(float, float[][], int, boolean) - Constructor for class de.unijena.cheminf.clustering.art2a.Art2aClusteringTask

Float clustering task constructor.

Art2aClusteringTask(float, float[][], int, boolean, float, float) - Constructor for class de.unijena.cheminf.clustering.art2a.Art2aClusteringTask

Float clustering task constructor.

Art2aDoubleClustering - Class in de.unijena.cheminf.clustering.art2a.clustering

The class implements an Art-2A algorithm in double machine precision for fast, stable unsupervised clustering for open categorical problems.

Art2aDoubleClustering(double[][], int, double, double, double) - Constructor for class de.unijena.cheminf.clustering.art2a.clustering.Art2aDoubleClustering

Constructor.

Art2aDoubleClusteringResult - Class in de.unijena.cheminf.clustering.art2a.results

Result class for the double clustering.

Art2aDoubleClusteringResult(double, int, int, int[], double[][], double[][]) - Constructor for class de.unijena.cheminf.clustering.art2a.results.Art2aDoubleClusteringResult

Constructor.

Art2aDoubleClusteringResult(double, int, int, int[], double[][], double[][], ConcurrentLinkedQueue<String>, ConcurrentLinkedQueue<String>) - Constructor for class de.unijena.cheminf.clustering.art2a.results.Art2aDoubleClusteringResult

Constructor.

Art2aFloatClustering - Class in de.unijena.cheminf.clustering.art2a.clustering

The class implements an Art-2A algorithm in single machine precision for fast, stable unsupervised clustering for open categorical problems.

Art2aFloatClustering(float[][], int, float, float, float) - Constructor for class de.unijena.cheminf.clustering.art2a.clustering.Art2aFloatClustering

Constructor.

Art2aFloatClusteringResult - Class in de.unijena.cheminf.clustering.art2a.results

Result class for float clustering.

Art2aFloatClusteringResult(float, int, int, int[], float[][], float[][]) - Constructor for class de.unijena.cheminf.clustering.art2a.results.Art2aFloatClusteringResult

Constructor.

Art2aFloatClusteringResult(float, int, int, int[], float[][], float[][], ConcurrentLinkedQueue<String>, ConcurrentLinkedQueue<String>) - Constructor for class de.unijena.cheminf.clustering.art2a.results.Art2aFloatClusteringResult

Constructor.

C

call() - Method in class de.unijena.cheminf.clustering.art2a.Art2aClusteringTask

Executes the clustering.

ConvergenceFailedException - Exception in de.unijena.cheminf.clustering.art2a.exceptions

An exception thrown when convergence fails.

ConvergenceFailedException() - Constructor for exception de.unijena.cheminf.clustering.art2a.exceptions.ConvergenceFailedException

Constructor.

ConvergenceFailedException(String) - Constructor for exception de.unijena.cheminf.clustering.art2a.exceptions.ConvergenceFailedException

Constructor.

D

de.unijena.cheminf.clustering.art2a - package de.unijena.cheminf.clustering.art2a

de.unijena.cheminf.clustering.art2a.abstractResult - package de.unijena.cheminf.clustering.art2a.abstractResult

de.unijena.cheminf.clustering.art2a.clustering - package de.unijena.cheminf.clustering.art2a.clustering

de.unijena.cheminf.clustering.art2a.exceptions - package de.unijena.cheminf.clustering.art2a.exceptions

de.unijena.cheminf.clustering.art2a.interfaces - package de.unijena.cheminf.clustering.art2a.interfaces

de.unijena.cheminf.clustering.art2a.results - package de.unijena.cheminf.clustering.art2a.results

de.unijena.cheminf.clustering.art2a.util - package de.unijena.cheminf.clustering.art2a.util

DEFAULT_LEARNING_PARAMETER_DOUBLE - Static variable in class de.unijena.cheminf.clustering.art2a.Art2aClusteringTask

Default value of the learning parameter in double

DEFAULT_LEARNING_PARAMETER_FLOAT - Static variable in class de.unijena.cheminf.clustering.art2a.Art2aClusteringTask

Default value of the learning parameter in float

E

exportClusteringResultsToTextFiles(Writer, Writer) - Method in class de.unijena.cheminf.clustering.art2a.abstractResult.Art2aAbstractResult

The result of the clustering is additionally exported in two text files.

exportClusteringResultsToTextFiles(Writer, Writer) - Method in interface de.unijena.cheminf.clustering.art2a.interfaces.IArt2aClusteringResult

The result of the clustering is additionally exported in two text files.

F

FileUtil - Class in de.unijena.cheminf.clustering.art2a.util

File utility.

FileUtil() - Constructor for class de.unijena.cheminf.clustering.art2a.util.FileUtil

G

getAngleBetweenClusters(int, int) - Method in interface de.unijena.cheminf.clustering.art2a.interfaces.IArt2aClusteringResult

Calculates the angle between two clusters.

getAngleBetweenClusters(int, int) - Method in class de.unijena.cheminf.clustering.art2a.results.Art2aDoubleClusteringResult

Calculates the angle between two clusters.

getAngleBetweenClusters(int, int) - Method in class de.unijena.cheminf.clustering.art2a.results.Art2aFloatClusteringResult

Calculates the angle between two clusters.

getClusterIndices(int) - Method in class de.unijena.cheminf.clustering.art2a.abstractResult.Art2aAbstractResult

Returns the input indices assigned to the given cluster.

getClusterIndices(int) - Method in interface de.unijena.cheminf.clustering.art2a.interfaces.IArt2aClusteringResult

Returns the input indices assigned to the given cluster.

getClusterRepresentatives(int) - Method in interface de.unijena.cheminf.clustering.art2a.interfaces.IArt2aClusteringResult

Calculates the cluster representative.

getClusterRepresentatives(int) - Method in class de.unijena.cheminf.clustering.art2a.results.Art2aDoubleClusteringResult

Calculates the cluster representative.

getClusterRepresentatives(int) - Method in class de.unijena.cheminf.clustering.art2a.results.Art2aFloatClusteringResult

Calculates the cluster representative.

getClusterResult(boolean, int) - Method in class de.unijena.cheminf.clustering.art2a.clustering.Art2aDoubleClustering

Starts an Art-2A clustering algorithm.

getClusterResult(boolean, int) - Method in class de.unijena.cheminf.clustering.art2a.clustering.Art2aFloatClustering

Starts an Art-2A clustering algorithm.

getClusterResult(boolean, int) - Method in interface de.unijena.cheminf.clustering.art2a.interfaces.IArt2aClustering

Starts an Art-2A clustering algorithm.

getNumberOfDetectedClusters() - Method in class de.unijena.cheminf.clustering.art2a.abstractResult.Art2aAbstractResult

Returns the number of detected clusters.

getNumberOfDetectedClusters() - Method in interface de.unijena.cheminf.clustering.art2a.interfaces.IArt2aClusteringResult

Returns the number of detected clusters.

getNumberOfEpochs() - Method in class de.unijena.cheminf.clustering.art2a.abstractResult.Art2aAbstractResult

Returns the number of epochs.

getNumberOfEpochs() - Method in interface de.unijena.cheminf.clustering.art2a.interfaces.IArt2aClusteringResult

Returns the number of epochs.

getRandomizeVectorIndices() - Method in class de.unijena.cheminf.clustering.art2a.clustering.Art2aDoubleClustering

Since the Art-2a algorithm randomly selects any input vector, the input vectors must first be randomized.

getRandomizeVectorIndices() - Method in class de.unijena.cheminf.clustering.art2a.clustering.Art2aFloatClustering

Since the Art-2a algorithm randomly selects any input vector, the input vectors must first be randomized.

getRandomizeVectorIndices() - Method in interface de.unijena.cheminf.clustering.art2a.interfaces.IArt2aClustering

Since the Art-2a algorithm randomly selects any input vector, the input vectors must first be randomized.

getVigilanceParameter() - Method in interface de.unijena.cheminf.clustering.art2a.interfaces.IArt2aClusteringResult

Returns the vigilance parameter of the clustering algorithm.

getVigilanceParameter() - Method in class de.unijena.cheminf.clustering.art2a.results.Art2aDoubleClusteringResult

Returns the vigilance parameter of the clustering algorithm.

getVigilanceParameter() - Method in class de.unijena.cheminf.clustering.art2a.results.Art2aFloatClusteringResult

Returns the vigilance parameter of the clustering algorithm.

I

IArt2aClustering - Interface in de.unijena.cheminf.clustering.art2a.interfaces

Interface for implementing float and double Art-2a clustering.

IArt2aClusteringResult<T> - Interface in de.unijena.cheminf.clustering.art2a.interfaces

Interface for implementing clustering result classes.

importDoubleDataMatrixFromTextFile(String, char) - Static method in class de.unijena.cheminf.clustering.art2a.util.FileUtil

The text file contains input vectors/fingerprints that are read in to prepare them for double clustering.

importFloatDataMatrixFromTextFile(String, char) - Static method in class de.unijena.cheminf.clustering.art2a.util.FileUtil

The text file contains input vectors/fingerprints that are read in to prepare them for float clustering.

initializeMatrices() - Method in class de.unijena.cheminf.clustering.art2a.clustering.Art2aDoubleClustering

Initialise the cluster matrices.

initializeMatrices() - Method in class de.unijena.cheminf.clustering.art2a.clustering.Art2aFloatClustering

Initialise the cluster matrices.

initializeMatrices() - Method in interface de.unijena.cheminf.clustering.art2a.interfaces.IArt2aClustering

Initialise the cluster matrices.

R

REQUIRED_SIMILARITY_DOUBLE - Static variable in class de.unijena.cheminf.clustering.art2a.Art2aClusteringTask

Default value of the required similarity parameter in double

REQUIRED_SIMILARITY_FLOAT - Static variable in class de.unijena.cheminf.clustering.art2a.Art2aClusteringTask

Default value of the required similarity parameter in float

S

setSeed(int) - Method in class de.unijena.cheminf.clustering.art2a.Art2aClusteringTask

User-defined seed value to randomize input vectors.

setUpClusteringResultTextFilePrinters(String, Class<T>) - Static method in class de.unijena.cheminf.clustering.art2a.util.FileUtil

Set up the clustering result text file writers.

A C D E F G I R S
All Classes and Interfaces|All Packages|Constant Field Values|Serialized Form