repo stringlengths 1 191 ⌀ | file stringlengths 23 351 | code stringlengths 0 5.32M | file_length int64 0 5.32M | avg_line_length float64 0 2.9k | max_line_length int64 0 288k | extension_type stringclasses 1
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JSAT | JSAT-master/JSAT/src/jsat/classifiers/svm/extended/OnlineAMM.java | package jsat.classifiers.svm.extended;
import java.util.*;
import jsat.DataSet;
import jsat.classifiers.BaseUpdateableClassifier;
import jsat.classifiers.CategoricalData;
import jsat.classifiers.CategoricalResults;
import jsat.classifiers.DataPoint;
import jsat.distributions.Distribution;
import jsat.distributions.Gam... | 16,943 | 35.127932 | 166 | java |
JSAT | JSAT-master/JSAT/src/jsat/classifiers/trees/DecisionStump.java |
package jsat.classifiers.trees;
import java.util.*;
import java.util.concurrent.CountDownLatch;
import java.util.concurrent.ExecutorService;
import java.util.logging.Level;
import java.util.logging.Logger;
import jsat.DataSet;
import jsat.classifiers.*;
import jsat.classifiers.trees.ImpurityScore.ImpurityMeasure;
im... | 41,822 | 38.983748 | 172 | java |
JSAT | JSAT-master/JSAT/src/jsat/classifiers/trees/DecisionTree.java |
package jsat.classifiers.trees;
import java.util.*;
import java.util.concurrent.ExecutorService;
import java.util.logging.Level;
import java.util.logging.Logger;
import jsat.classifiers.CategoricalData;
import jsat.classifiers.CategoricalResults;
import jsat.classifiers.ClassificationDataSet;
import jsat.classifiers... | 21,656 | 33.874396 | 126 | java |
JSAT | JSAT-master/JSAT/src/jsat/classifiers/trees/ERTrees.java |
package jsat.classifiers.trees;
import static java.lang.Math.*;
import java.util.concurrent.CountDownLatch;
import java.util.concurrent.ExecutorService;
import jsat.DataSet;
import jsat.classifiers.CategoricalData;
import jsat.classifiers.CategoricalResults;
import jsat.classifiers.ClassificationDataSet;
import jsat.... | 9,436 | 32.703571 | 134 | java |
JSAT | JSAT-master/JSAT/src/jsat/classifiers/trees/ExtraTree.java | package jsat.classifiers.trees;
import java.util.*;
import jsat.classifiers.CategoricalData;
import jsat.classifiers.CategoricalResults;
import jsat.classifiers.ClassificationDataSet;
import jsat.classifiers.Classifier;
import jsat.classifiers.DataPoint;
import jsat.classifiers.trees.ImpurityScore.ImpurityMeasure;
im... | 33,212 | 30.84372 | 195 | java |
JSAT | JSAT-master/JSAT/src/jsat/classifiers/trees/ID3.java |
package jsat.classifiers.trees;
import java.util.ArrayList;
import java.util.List;
import java.util.Set;
import java.util.concurrent.ExecutorService;
import java.util.logging.Level;
import java.util.logging.Logger;
import jsat.classifiers.CategoricalData;
import jsat.classifiers.CategoricalResults;
import jsat.class... | 7,598 | 29.2749 | 137 | java |
JSAT | JSAT-master/JSAT/src/jsat/classifiers/trees/ImportanceByUses.java | /*
* Copyright (C) 2016 Edward Raff <Raff.Edward@gmail.com>
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
... | 1,981 | 27.314286 | 100 | java |
JSAT | JSAT-master/JSAT/src/jsat/classifiers/trees/ImpurityScore.java | package jsat.classifiers.trees;
import static java.lang.Math.*;
import java.util.Arrays;
import jsat.classifiers.CategoricalResults;
import jsat.classifiers.DataPoint;
/**
* ImpurityScore provides a measure of the impurity of a set of data points
* respective to their class labels. The impurity score is maximized ... | 10,262 | 32.321429 | 219 | java |
JSAT | JSAT-master/JSAT/src/jsat/classifiers/trees/MDA.java | /*
* Copyright (C) 2016 Edward Raff <Raff.Edward@gmail.com>
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
... | 6,096 | 36.869565 | 126 | java |
JSAT | JSAT-master/JSAT/src/jsat/classifiers/trees/MDI.java | /*
* Copyright (C) 2016 Edward Raff <Raff.Edward@gmail.com>
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
... | 5,400 | 37.856115 | 164 | java |
JSAT | JSAT-master/JSAT/src/jsat/classifiers/trees/RandomDecisionTree.java |
package jsat.classifiers.trees;
import java.util.List;
import java.util.Random;
import java.util.Set;
import java.util.concurrent.ExecutorService;
import jsat.classifiers.ClassificationDataSet;
import jsat.classifiers.DataPointPair;
import jsat.regression.RegressionDataSet;
import jsat.utils.ModifiableCountDownLatch;... | 4,134 | 30.564885 | 144 | java |
JSAT | JSAT-master/JSAT/src/jsat/classifiers/trees/RandomForest.java | package jsat.classifiers.trees;
import java.util.ArrayList;
import java.util.List;
import java.util.Random;
import java.util.Set;
import java.util.concurrent.Callable;
import java.util.concurrent.ExecutorService;
import java.util.concurrent.Future;
import java.util.logging.Level;
import java.util.logging.Logger;
impo... | 20,490 | 38.104962 | 153 | java |
JSAT | JSAT-master/JSAT/src/jsat/classifiers/trees/TreeFeatureImportanceInference.java | /*
* Copyright (C) 2016 Edward Raff <Raff.Edward@gmail.com>
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
... | 1,707 | 36.955556 | 101 | java |
JSAT | JSAT-master/JSAT/src/jsat/classifiers/trees/TreeLearner.java | package jsat.classifiers.trees;
import java.io.Serializable;
/**
* This interface provides a contract that allows for the mutation and pruning
* of a tree using the {@link TreeNodeVisitor} and related classes.
*
* @author Edward Raff
* @see TreeNodeVisitor
* @see TreePruner
*/
public interface TreeLearner e... | 589 | 25.818182 | 80 | java |
JSAT | JSAT-master/JSAT/src/jsat/classifiers/trees/TreeNodeVisitor.java | package jsat.classifiers.trees;
import java.io.Serializable;
import java.util.Collection;
import java.util.List;
import jsat.classifiers.CategoricalResults;
import jsat.classifiers.DataPoint;
import jsat.linear.DenseVector;
/**
* Provides an abstracted mechanism for traversing and predicting from nodes in
* a tree... | 8,669 | 36.37069 | 108 | java |
JSAT | JSAT-master/JSAT/src/jsat/classifiers/trees/TreePruner.java | package jsat.classifiers.trees;
import java.util.ArrayList;
import java.util.List;
import jsat.classifiers.ClassificationDataSet;
import jsat.classifiers.DataPoint;
import jsat.classifiers.DataPointPair;
import jsat.math.SpecialMath;
import jsat.utils.IntList;
/**
* Provides post-pruning algorithms for any decision ... | 10,870 | 35.850847 | 153 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/BayesianHAC.java | /*
* This code was contributed under the Public Domain
*/
package jsat.clustering;
import java.util.List;
import jsat.DataSet;
import jsat.linear.ConstantVector;
import jsat.linear.DenseVector;
import jsat.linear.MatrixStatistics;
import jsat.linear.Vec;
import jsat.utils.IntList;
import static jsat.math.SpecialMat... | 24,191 | 30.377432 | 174 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/CLARA.java |
package jsat.clustering;
import java.util.*;
import jsat.DataSet;
import jsat.SimpleDataSet;
import jsat.classifiers.DataPoint;
import jsat.clustering.SeedSelectionMethods.SeedSelection;
import jsat.linear.Vec;
import jsat.linear.distancemetrics.DistanceMetric;
import jsat.linear.distancemetrics.EuclideanDistance;
im... | 6,935 | 29.421053 | 136 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/ClusterFailureException.java | package jsat.clustering;
/**
* A ClusterFailureException is thrown when a clustering method is unable to
* perform its clustering for some reason.
*
* @author Edward Raff
*/
public class ClusterFailureException extends RuntimeException
{
private static final long serialVersionUID = -8084320940762402095L;
... | 659 | 17.857143 | 77 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/Clusterer.java |
package jsat.clustering;
import java.io.Serializable;
import java.util.List;
import java.util.concurrent.ExecutorService;
import jsat.DataSet;
import jsat.classifiers.DataPoint;
import static jsat.clustering.ClustererBase.createClusterListFromAssignmentArray;
/**
* Defines the interface for a generic clustering alg... | 3,464 | 38.375 | 131 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/ClustererBase.java |
package jsat.clustering;
import java.util.ArrayList;
import java.util.List;
import java.util.concurrent.ExecutorService;
import jsat.DataSet;
import jsat.classifiers.DataPoint;
/**
* A base foundation that provides an implementation of {@link #cluster(jsat.DataSet) }
* and {@link #cluster(jsat.DataSet, java.util.... | 2,975 | 36.670886 | 131 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/DBSCAN.java | package jsat.clustering;
import java.util.*;
import jsat.DataSet;
import jsat.classifiers.DataPoint;
import jsat.linear.Vec;
import jsat.linear.VecPaired;
import jsat.linear.distancemetrics.DistanceMetric;
import jsat.linear.distancemetrics.EuclideanDistance;
import jsat.linear.distancemetrics.TrainableDistanceMetric;... | 7,921 | 34.053097 | 147 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/EMGaussianMixture.java | package jsat.clustering;
import static java.lang.Math.log;
import java.util.*;
import java.util.concurrent.*;
import java.util.logging.Level;
import java.util.logging.Logger;
import jsat.DataSet;
import jsat.SimpleDataSet;
import jsat.classifiers.CategoricalData;
import jsat.classifiers.DataPoint;
import jsat.cluste... | 16,834 | 32.009804 | 203 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/FLAME.java | package jsat.clustering;
import java.util.*;
import java.util.concurrent.atomic.DoubleAdder;
import jsat.DataSet;
import jsat.exceptions.FailedToFitException;
import jsat.linear.Vec;
import jsat.linear.VecPaired;
import jsat.linear.distancemetrics.DistanceMetric;
import jsat.linear.distancemetrics.TrainableDistanceMe... | 15,223 | 35.772947 | 153 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/GapStatistic.java | package jsat.clustering;
import java.util.*;
import jsat.DataSet;
import jsat.SimpleDataSet;
import jsat.classifiers.CategoricalData;
import jsat.classifiers.DataPoint;
import jsat.clustering.evaluation.IntraClusterSumEvaluation;
import jsat.clustering.evaluation.intra.SumOfSqrdPairwiseDistances;
import jsat.clusterin... | 15,151 | 35.86618 | 140 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/HDBSCAN.java | /*
* Copyright (C) 2016 Edward Raff
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
* This program is distri... | 18,802 | 35.229287 | 143 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/KClusterer.java |
package jsat.clustering;
import java.util.List;
import java.util.concurrent.ExecutorService;
import jsat.DataSet;
import jsat.classifiers.DataPoint;
import static jsat.clustering.ClustererBase.createClusterListFromAssignmentArray;
/**
* Defines a clustering method that requires the number of clusters in the data se... | 3,525 | 37.326087 | 109 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/KClustererBase.java | package jsat.clustering;
import java.util.List;
import java.util.concurrent.ExecutorService;
import jsat.DataSet;
import jsat.classifiers.DataPoint;
/**
* A base foundation that provides an implementation of the methods that return a list of lists for the clusterings using
* their int array counterparts.
* @auth... | 556 | 24.318182 | 122 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/LSDBC.java | package jsat.clustering;
import java.util.*;
import jsat.DataSet;
import jsat.linear.Vec;
import jsat.linear.VecPaired;
import jsat.linear.distancemetrics.*;
import jsat.linear.vectorcollection.*;
import jsat.parameters.*;
import jsat.utils.*;
/**
* A parallel implementation of <i>Locally Scaled Density Based Clust... | 10,750 | 31.978528 | 158 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/MEDDIT.java | /*
* Copyright (C) 2018 Edward Raff <Raff.Edward@gmail.com>
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
... | 16,297 | 35.542601 | 164 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/MeanShift.java | package jsat.clustering;
import java.util.Arrays;
import java.util.List;
import java.util.concurrent.*;
import java.util.concurrent.atomic.AtomicBoolean;
import java.util.logging.Level;
import java.util.logging.Logger;
import jsat.DataSet;
import jsat.distributions.empirical.kernelfunc.GaussKF;
import jsat.distributio... | 10,478 | 35.010309 | 189 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/OPTICS.java | package jsat.clustering;
import java.util.*;
import jsat.DataSet;
import jsat.linear.Vec;
import jsat.linear.VecPaired;
import jsat.linear.distancemetrics.DistanceMetric;
import jsat.linear.distancemetrics.EuclideanDistance;
import jsat.linear.vectorcollection.*;
import jsat.math.OnLineStatistics;
import jsat.paramet... | 24,445 | 33.922857 | 128 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/PAM.java |
package jsat.clustering;
import jsat.linear.distancemetrics.TrainableDistanceMetric;
import java.util.Arrays;
import java.util.Collection;
import java.util.List;
import java.util.Random;
import java.util.concurrent.atomic.DoubleAdder;
import java.util.concurrent.atomic.LongAdder;
import jsat.DataSet;
import jsat.li... | 11,527 | 30.845304 | 161 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/SeedSelectionMethods.java |
package jsat.clustering;
import java.util.*;
import java.util.concurrent.atomic.AtomicInteger;
import jsat.DataSet;
import jsat.SimpleDataSet;
import jsat.classifiers.CategoricalData;
import jsat.classifiers.DataPoint;
import jsat.linear.DenseVector;
import jsat.linear.MatrixStatistics;
import jsat.linear.Vec;
import... | 27,028 | 35.674355 | 177 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/TRIKMEDS.java | /*
* Copyright (C) 2018 Edward Raff
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
* This program is distri... | 15,666 | 40.337731 | 174 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/VBGMM.java | /*
* This code contributed under the Public Domain.
*/
package jsat.clustering;
import static java.lang.Math.log;
import java.util.ArrayList;
import java.util.Arrays;
import java.util.List;
import java.util.Random;
import java.util.stream.Collectors;
import jsat.DataSet;
import jsat.SimpleDataSet;
import jsat.class... | 23,816 | 35.03177 | 267 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/biclustering/Bicluster.java | /*
* This code was contributed under the public domain.
*/
package jsat.clustering.biclustering;
import java.util.List;
import jsat.DataSet;
/**
*
* @author Edward Raff
*/
public interface Bicluster
{
default public int[] cluster(DataSet dataSet, int lowK, int highK, boolean parallel, int[] designation... | 3,153 | 37.938272 | 108 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/biclustering/ConsensusScore.java | /*
* This code was contributed under the public domain.
*/
package jsat.clustering.biclustering;
import java.util.HashMap;
import java.util.HashSet;
import java.util.List;
import java.util.Map;
import java.util.Set;
import jsat.linear.DenseMatrix;
import jsat.linear.Matrix;
import jsat.utils.Pair;
import jsat.utils... | 5,406 | 39.962121 | 152 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/biclustering/SpectralCoClustering.java | /*
* This code was contributed under the public domain.
*/
package jsat.clustering.biclustering;
import java.util.List;
import jsat.DataSet;
import jsat.SimpleDataSet;
import jsat.classifiers.CategoricalData;
import jsat.classifiers.DataPoint;
import jsat.clustering.Clusterer;
import jsat.clustering.KClusterer;
imp... | 11,268 | 35.826797 | 160 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/dissimilarity/AbstractClusterDissimilarity.java | package jsat.clustering.dissimilarity;
import jsat.DataSet;
/**
* This base class does not currently provide any inheritable functionality, but
* stores static methods.
*
* @author Edward Raff
*/
public abstract class AbstractClusterDissimilarity implements ClusterDissimilarity
{
/**
* A convenience ... | 3,162 | 33.010753 | 104 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/dissimilarity/AverageLinkDissimilarity.java | package jsat.clustering.dissimilarity;
import java.util.*;
import jsat.classifiers.DataPoint;
import jsat.linear.distancemetrics.DistanceMetric;
import jsat.linear.distancemetrics.EuclideanDistance;
/**
* Also known as Group-Average Agglomerative Clustering (GAAC) and UPGMA, this
* measure computer the dissimilarit... | 3,176 | 26.387931 | 113 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/dissimilarity/CentroidDissimilarity.java |
package jsat.clustering.dissimilarity;
import java.util.List;
import java.util.Set;
import jsat.classifiers.DataPoint;
import jsat.linear.distancemetrics.DistanceMetric;
import jsat.linear.distancemetrics.EuclideanDistance;
/**
* Average similarity of all data point pairs between clusters, inter-cluster
* pairs a... | 2,654 | 23.813084 | 134 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/dissimilarity/ClusterDissimilarity.java | package jsat.clustering.dissimilarity;
import java.util.List;
import java.util.Set;
import jsat.classifiers.DataPoint;
/**
* This interface provides the basic contract for measuring the dissimilarity
* between two clusters, and intended for use in Hierarchical Agglomerative
* Clustering.
*
* @author Edward R... | 2,249 | 41.45283 | 131 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/dissimilarity/CompleteLinkDissimilarity.java |
package jsat.clustering.dissimilarity;
import java.util.List;
import java.util.Set;
import jsat.classifiers.DataPoint;
import jsat.linear.distancemetrics.DistanceMetric;
import jsat.linear.distancemetrics.EuclideanDistance;
/**
* Measures the dissimilarity of two clusters by returning the value of the
* maximal d... | 2,888 | 24.121739 | 114 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/dissimilarity/DistanceMetricDissimilarity.java |
package jsat.clustering.dissimilarity;
import jsat.classifiers.DataPoint;
import jsat.linear.distancemetrics.DistanceMetric;
/**
* A base class for Dissimilarity measures that are build ontop the use of some {@link DistanceMetric distance metric}.
*
* @author Edward Raff
*/
public abstract class DistanceMetric... | 827 | 24.090909 | 120 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/dissimilarity/LanceWilliamsDissimilarity.java |
package jsat.clustering.dissimilarity;
import static java.lang.Math.abs;
import java.util.List;
import java.util.Set;
import jsat.classifiers.DataPoint;
import jsat.linear.distancemetrics.DistanceMetric;
import jsat.utils.IntSet;
/**
* This class provides a base implementation of a Lance Williams (LW)
* Dissimila... | 8,309 | 37.831776 | 125 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/dissimilarity/MedianDissimilarity.java | /*
* Copyright (C) 2016 Edward Raff <Raff.Edward@gmail.com>
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
... | 1,706 | 25.261538 | 75 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/dissimilarity/SingleLinkDissimilarity.java |
package jsat.clustering.dissimilarity;
import java.util.List;
import java.util.Set;
import jsat.classifiers.DataPoint;
import jsat.linear.distancemetrics.DistanceMetric;
import jsat.linear.distancemetrics.EuclideanDistance;
/**
* Measures the dissimilarity of two clusters by returning the minimum
* dissimilarity ... | 2,903 | 24.252174 | 112 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/dissimilarity/UpdatableClusterDissimilarity.java |
package jsat.clustering.dissimilarity;
/**
* This interface extends the contract of a {@link ClusterDissimilarity} for
* more efficient computation. This contract indicates that the dissimilarity
* measure being used can be computed in an online fashion, and that the
* dissimilarity matrix can be updated to re... | 3,847 | 53.971429 | 105 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/dissimilarity/WardsDissimilarity.java | package jsat.clustering.dissimilarity;
import jsat.linear.distancemetrics.SquaredEuclideanDistance;
/**
* An implementation of Ward's method for hierarchical clustering. This method
* merges clusters based on the minimum total variance of the resulting
* clusters.
*
* @author Edward Raff
*/
public class War... | 1,069 | 20.4 | 79 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/evaluation/AdjustedRandIndex.java | package jsat.clustering.evaluation;
import java.util.List;
import jsat.DataSet;
import jsat.classifiers.ClassificationDataSet;
import jsat.classifiers.DataPoint;
import static java.lang.Math.*;
/**
* Adjusted Rand Index (ARI) is a measure to evaluate a cluster based
* on the true class labels for the data set. The... | 3,779 | 34.660377 | 120 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/evaluation/ClusterEvaluation.java | package jsat.clustering.evaluation;
import java.util.List;
import jsat.DataSet;
import jsat.classifiers.DataPoint;
import jsat.clustering.dissimilarity.ClusterDissimilarity;
/**
* Provides the contract for evaluating the quality of a hard assignment of
* clustering a dataset. The value returned indicates the qualit... | 2,384 | 40.842105 | 83 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/evaluation/ClusterEvaluationBase.java |
package jsat.clustering.evaluation;
import jsat.DataSet;
import jsat.clustering.ClustererBase;
/**
* Base implementation for one of the methods in {@link ClusterEvaluation} to
* make life easier.
*
* @author Edward Raff
*/
abstract public class ClusterEvaluationBase implements ClusterEvaluation
{
@Overr... | 569 | 21.8 | 99 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/evaluation/Completeness.java | /*
* Copyright (C) 2019 Edward Raff
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
* This program is distri... | 3,212 | 28.75 | 138 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/evaluation/DaviesBouldinIndex.java |
package jsat.clustering.evaluation;
import java.util.ArrayList;
import java.util.List;
import jsat.DataSet;
import jsat.SimpleDataSet;
import jsat.classifiers.DataPoint;
import jsat.clustering.ClustererBase;
import jsat.linear.MatrixStatistics;
import jsat.linear.Vec;
import jsat.linear.distancemetrics.DistanceMetric... | 3,455 | 28.042017 | 121 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/evaluation/DunnIndex.java | package jsat.clustering.evaluation;
import java.util.List;
import jsat.DataSet;
import jsat.classifiers.DataPoint;
import jsat.clustering.ClustererBase;
import jsat.clustering.dissimilarity.ClusterDissimilarity;
import jsat.clustering.evaluation.intra.IntraClusterEvaluation;
/**
* Computes the Dunn Index (DI) using ... | 2,566 | 26.602151 | 99 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/evaluation/Homogeneity.java | /*
* Copyright (C) 2019 Edward Raff
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
* This program is distri... | 3,278 | 28.276786 | 104 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/evaluation/IntraClusterSumEvaluation.java | package jsat.clustering.evaluation;
import java.util.List;
import jsat.classifiers.DataPoint;
import jsat.clustering.evaluation.intra.IntraClusterEvaluation;
/**
* Evaluates a cluster based on the sum of scores for some
* {@link IntraClusterEvaluation} applied to each cluster.
*
* @author Edward Raff
*/
publi... | 1,358 | 22.431034 | 74 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/evaluation/NormalizedMutualInformation.java | package jsat.clustering.evaluation;
import java.util.List;
import jsat.DataSet;
import jsat.classifiers.ClassificationDataSet;
import jsat.classifiers.DataPoint;
import jsat.utils.DoubleList;
/**
* Normalized Mutual Information (NMI) is a measure to evaluate a cluster based
* on the true class labels for the data ... | 3,686 | 30.245763 | 96 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/evaluation/VMeasure.java | /*
* Copyright (C) 2019 Edward Raff
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
* This program is distri... | 3,062 | 28.737864 | 101 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/evaluation/intra/IntraClusterEvaluation.java |
package jsat.clustering.evaluation.intra;
import java.util.List;
import jsat.DataSet;
import jsat.classifiers.DataPoint;
/**
* This interface defines the contract for a method to evaluate the
* intra-cluster distance. This means an evaluation of a single cluster,
* where a higher value indicates a poorly formed... | 1,366 | 34.973684 | 80 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/evaluation/intra/MaxDistance.java |
package jsat.clustering.evaluation.intra;
import java.util.List;
import jsat.DataSet;
import jsat.classifiers.DataPoint;
import jsat.linear.distancemetrics.DistanceMetric;
import jsat.linear.distancemetrics.EuclideanDistance;
/**
* Evaluates a cluster's validity by returning the
* maximum distance between any two... | 2,175 | 26.2 | 82 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/evaluation/intra/MeanCentroidDistance.java | package jsat.clustering.evaluation.intra;
import java.util.List;
import jsat.DataSet;
import jsat.SimpleDataSet;
import jsat.classifiers.DataPoint;
import jsat.linear.*;
import jsat.linear.distancemetrics.DistanceMetric;
import jsat.linear.distancemetrics.EuclideanDistance;
/**
* Evaluates a cluster's validity by co... | 2,371 | 25.355556 | 85 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/evaluation/intra/MeanDistance.java | package jsat.clustering.evaluation.intra;
import java.util.List;
import jsat.DataSet;
import jsat.classifiers.DataPoint;
import jsat.linear.distancemetrics.DistanceMetric;
import jsat.linear.distancemetrics.EuclideanDistance;
/**
* Evaluates a cluster's validity by computing the mean distance between all
* combina... | 2,095 | 26.578947 | 87 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/evaluation/intra/SoSCentroidDistance.java | package jsat.clustering.evaluation.intra;
import java.util.List;
import jsat.DataSet;
import jsat.SimpleDataSet;
import jsat.classifiers.DataPoint;
import jsat.linear.*;
import jsat.linear.distancemetrics.DistanceMetric;
import jsat.linear.distancemetrics.EuclideanDistance;
/**
* Evaluates a cluster's validity by co... | 2,408 | 25.184783 | 98 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/evaluation/intra/SumOfSqrdPairwiseDistances.java | package jsat.clustering.evaluation.intra;
import java.util.List;
import jsat.DataSet;
import jsat.SimpleDataSet;
import jsat.classifiers.DataPoint;
import jsat.linear.DenseVector;
import jsat.linear.Vec;
import jsat.linear.distancemetrics.DistanceMetric;
import jsat.linear.distancemetrics.EuclideanDistance;
/**
* Ev... | 3,609 | 26.348485 | 87 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/hierarchical/DivisiveGlobalClusterer.java | package jsat.clustering.hierarchical;
import java.util.*;
import java.util.concurrent.ExecutorService;
import jsat.DataSet;
import jsat.SimpleDataSet;
import jsat.classifiers.DataPoint;
import jsat.clustering.*;
import jsat.clustering.evaluation.ClusterEvaluation;
/**
* DivisiveGlobalClusterer is a hierarchical clus... | 10,772 | 40.118321 | 117 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/hierarchical/DivisiveLocalClusterer.java |
package jsat.clustering.hierarchical;
import java.util.*;
import java.util.concurrent.ExecutorService;
import jsat.DataSet;
import jsat.SimpleDataSet;
import jsat.classifiers.DataPoint;
import jsat.clustering.*;
import jsat.clustering.evaluation.ClusterEvaluation;
/**
* DivisiveLocalClusterer is a hierarchical clus... | 8,263 | 38.352381 | 127 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/hierarchical/NNChainHAC.java | /*
* Copyright (C) 2016 Edward Raff <Raff.Edward@gmail.com>
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
... | 17,193 | 36.541485 | 161 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/hierarchical/PriorityHAC.java | package jsat.clustering.hierarchical;
import java.util.*;
import java.util.concurrent.ExecutorService;
import jsat.DataSet;
import jsat.classifiers.DataPoint;
import jsat.clustering.KClustererBase;
import jsat.clustering.dissimilarity.UpdatableClusterDissimilarity;
import jsat.math.OnLineStatistics;
import static jsa... | 12,104 | 35.905488 | 162 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/hierarchical/SimpleHAC.java | package jsat.clustering.hierarchical;
import java.util.ArrayList;
import java.util.List;
import java.util.Set;
import java.util.concurrent.ExecutorService;
import jsat.DataSet;
import jsat.clustering.KClustererBase;
import static jsat.clustering.dissimilarity.AbstractClusterDissimilarity.createDistanceMatrix;
import j... | 4,802 | 31.234899 | 123 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/kmeans/ElkanKMeans.java |
package jsat.clustering.kmeans;
import java.util.*;
import java.util.concurrent.*;
import java.util.concurrent.atomic.*;
import java.util.logging.Level;
import java.util.logging.Logger;
import jsat.DataSet;
import jsat.clustering.ClusterFailureException;
import jsat.clustering.SeedSelectionMethods.SeedSelection;
impo... | 18,194 | 38.989011 | 251 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/kmeans/ElkanKernelKMeans.java |
package jsat.clustering.kmeans;
import java.util.*;
import java.util.concurrent.*;
import java.util.concurrent.atomic.AtomicBoolean;
import jsat.DataSet;
import jsat.clustering.ClusterFailureException;
import jsat.distributions.kernels.KernelTrick;
import jsat.exceptions.FailedToFitException;
import jsat.linear.Vec;
... | 16,411 | 37.616471 | 191 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/kmeans/GMeans.java |
package jsat.clustering.kmeans;
import java.util.*;
import java.util.concurrent.ExecutorService;
import jsat.DataSet;
import jsat.SimpleDataSet;
import jsat.classifiers.DataPoint;
import jsat.distributions.Normal;
import jsat.linear.DenseVector;
import jsat.linear.Vec;
import jsat.clustering.SeedSelectionMethods;
imp... | 11,446 | 35.689103 | 195 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/kmeans/HamerlyKMeans.java | package jsat.clustering.kmeans;
import java.util.ArrayList;
import java.util.Arrays;
import java.util.Collections;
import java.util.List;
import java.util.Random;
import java.util.concurrent.CountDownLatch;
import java.util.concurrent.ExecutorService;
import java.util.concurrent.atomic.AtomicInteger;
import java.util.... | 22,551 | 37.223729 | 329 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/kmeans/KMeans.java |
package jsat.clustering.kmeans;
import java.util.*;
import java.util.concurrent.*;
import java.util.logging.Level;
import java.util.logging.Logger;
import jsat.DataSet;
import jsat.classifiers.DataPoint;
import jsat.clustering.ClusterFailureException;
import jsat.clustering.KClustererBase;
import jsat.clustering.PAM;... | 10,920 | 33.891374 | 227 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/kmeans/KMeansPDN.java | package jsat.clustering.kmeans;
import java.util.*;
import jsat.DataSet;
import jsat.linear.Vec;
/**
* This class provides a method of performing {@link KMeans} clustering when the
* value of {@code K} is not known. It works by incrementing the value
* of {@code k} up to some specified maximum, and running a full... | 5,608 | 34.27673 | 257 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/kmeans/KernelKMeans.java |
package jsat.clustering.kmeans;
import java.util.ArrayList;
import java.util.Arrays;
import java.util.List;
import java.util.Random;
import java.util.concurrent.Callable;
import java.util.concurrent.ExecutionException;
import java.util.concurrent.ExecutorService;
import java.util.concurrent.Future;
import java.util.l... | 23,132 | 36.31129 | 165 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/kmeans/LloydKernelKMeans.java |
package jsat.clustering.kmeans;
import jsat.DataSet;
import jsat.distributions.kernels.KernelTrick;
import jsat.exceptions.FailedToFitException;
import jsat.utils.concurrent.ParallelUtils;
/**
* An implementation of the naive algorithm for performing kernel k-means.
*
* @author Edward Raff
*/
public class Lloy... | 4,617 | 26.819277 | 98 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/kmeans/MiniBatchKMeans.java | package jsat.clustering.kmeans;
import java.util.*;
import java.util.concurrent.*;
import java.util.logging.Level;
import java.util.logging.Logger;
import jsat.DataSet;
import jsat.clustering.KClustererBase;
import jsat.clustering.SeedSelectionMethods;
import jsat.clustering.SeedSelectionMethods.SeedSelection;
import ... | 10,873 | 31.076696 | 139 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/kmeans/NaiveKMeans.java | package jsat.clustering.kmeans;
import java.util.ArrayList;
import java.util.Arrays;
import java.util.Collections;
import java.util.List;
import java.util.Random;
import java.util.concurrent.CountDownLatch;
import java.util.concurrent.atomic.AtomicInteger;
import java.util.concurrent.atomic.LongAdder;
import java.util... | 8,555 | 33.224 | 227 | java |
JSAT | JSAT-master/JSAT/src/jsat/clustering/kmeans/XMeans.java |
package jsat.clustering.kmeans;
import java.util.*;
import jsat.DataSet;
import jsat.SimpleDataSet;
import jsat.classifiers.DataPoint;
import jsat.linear.Vec;
import jsat.clustering.SeedSelectionMethods;
import jsat.linear.*;
import static java.lang.Math.*;
/**
* This class provides a method of performing {@link KM... | 13,163 | 36.186441 | 195 | java |
JSAT | JSAT-master/JSAT/src/jsat/datatransform/AutoDeskewTransform.java |
package jsat.datatransform;
import java.util.Arrays;
import java.util.List;
import jsat.DataSet;
import jsat.classifiers.DataPoint;
import jsat.linear.IndexValue;
import jsat.linear.Vec;
import jsat.math.IndexFunction;
import jsat.math.OnLineStatistics;
import jsat.utils.DoubleList;
/**
* This transform applies a s... | 10,233 | 30.58642 | 136 | java |
JSAT | JSAT-master/JSAT/src/jsat/datatransform/DataModelPipeline.java | package jsat.datatransform;
import java.util.List;
import java.util.concurrent.ExecutorService;
import jsat.classifiers.CategoricalResults;
import jsat.classifiers.ClassificationDataSet;
import jsat.classifiers.Classifier;
import jsat.classifiers.DataPoint;
import jsat.parameters.Parameter;
import jsat.parameters.Para... | 6,683 | 34.553191 | 140 | java |
JSAT | JSAT-master/JSAT/src/jsat/datatransform/DataTransform.java |
package jsat.datatransform;
import java.io.Serializable;
import jsat.DataSet;
import jsat.classifiers.DataPoint;
import jsat.exceptions.FailedToFitException;
/**
* A pre-processing step may be desirable before training. If a pre-processing
* step is used, it is necessary to also apply the same transform on the in... | 1,896 | 36.94 | 80 | java |
JSAT | JSAT-master/JSAT/src/jsat/datatransform/DataTransformBase.java | package jsat.datatransform;
import java.util.List;
import jsat.parameters.Parameter;
import jsat.parameters.Parameterized;
/**
* This abstract class implements the Parameterized interface to ease the
* development of simple Data Transforms. If a more complicated set of
* parameters is needed then what is obtaine... | 615 | 25.782609 | 79 | java |
JSAT | JSAT-master/JSAT/src/jsat/datatransform/DataTransformProcess.java | package jsat.datatransform;
import java.util.ArrayList;
import java.util.List;
import jsat.DataSet;
import jsat.classifiers.DataPoint;
import jsat.linear.Vec;
import jsat.parameters.Parameter;
import jsat.parameters.Parameter.ParameterHolder;
import jsat.parameters.Parameterized;
/**
* Performing a transform on the ... | 7,687 | 34.266055 | 120 | java |
JSAT | JSAT-master/JSAT/src/jsat/datatransform/DenseSparceTransform.java |
package jsat.datatransform;
import java.util.Iterator;
import jsat.DataSet;
import jsat.classifiers.DataPoint;
import jsat.linear.*;
/**
* Dense sparce transform alters the vectors that store the numerical values.
* Based on a threshold in (0, 1), vectors will be converted from dense to
* sparce, sparce to dens... | 2,623 | 31 | 104 | java |
JSAT | JSAT-master/JSAT/src/jsat/datatransform/FastICA.java | package jsat.datatransform;
import java.util.*;
import jsat.DataSet;
import jsat.classifiers.DataPoint;
import jsat.linear.*;
import static java.lang.Math.*;
import jsat.exceptions.FailedToFitException;
/**
* Provides an implementation of the FastICA algorithm for Independent Component
* Analysis (ICA). ICA is simi... | 13,509 | 29.496614 | 98 | java |
JSAT | JSAT-master/JSAT/src/jsat/datatransform/FixedDataTransform.java | /*
* This code contributed in the public domain.
*/
package jsat.datatransform;
import jsat.classifiers.DataPoint;
/**
* This interface is meant to be used for convinence when you wish to apply a
* transformation to a data set using the Java 8 lambda features. It is for
* transformations that do not need to be ... | 968 | 30.258065 | 80 | java |
JSAT | JSAT-master/JSAT/src/jsat/datatransform/Imputer.java | /*
* Copyright (C) 2016 Edward Raff <Raff.Edward@gmail.com>
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
... | 7,126 | 32.303738 | 119 | java |
JSAT | JSAT-master/JSAT/src/jsat/datatransform/InPlaceInvertibleTransform.java | package jsat.datatransform;
import jsat.classifiers.DataPoint;
/**
* This interface behaves exactly as {@link InPlaceTransform} specifies, with
* the addition of an in-place "reverse" method that can be used to alter any
* given transformed data point back into an <i>approximation</i> of the
* original vector,... | 907 | 29.266667 | 89 | java |
JSAT | JSAT-master/JSAT/src/jsat/datatransform/InPlaceTransform.java | package jsat.datatransform;
import jsat.classifiers.DataPoint;
/**
* An In Place Transform is one that has the same number of categorical and
* numeric features as the input. This means it can mutableTransform the input data point
* instead of allocating a new one, which can reduce overhead on memory
* allocation... | 1,410 | 35.179487 | 89 | java |
JSAT | JSAT-master/JSAT/src/jsat/datatransform/InsertMissingValuesTransform.java | /*
* Copyright (C) 2016 Edward Raff
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
* This program is distri... | 2,564 | 25.443299 | 80 | java |
JSAT | JSAT-master/JSAT/src/jsat/datatransform/InverseOfTransform.java | package jsat.datatransform;
import jsat.DataSet;
import jsat.classifiers.DataPoint;
/**
* Creates a new Transform object that simply uses the inverse of an
* {@link InvertibleTransform} as a regular transform. This allows one to apply
* inverses after the fact in a simple matter like:
* <pre><code>
* DataSet ... | 1,663 | 25 | 80 | java |
JSAT | JSAT-master/JSAT/src/jsat/datatransform/InvertibleTransform.java | package jsat.datatransform;
import jsat.classifiers.DataPoint;
/**
* A InvertibleTransform is one in which any given transformed vector can be
inverse to recover an <i>approximation</i> of the original vector when using
* a transform that implements this interface. It may not be possible to
* perfectly reprodu... | 927 | 29.933333 | 78 | java |
JSAT | JSAT-master/JSAT/src/jsat/datatransform/JLTransform.java | package jsat.datatransform;
import java.util.ArrayList;
import java.util.Collections;
import java.util.List;
import java.util.Random;
import jsat.DataSet;
import jsat.classifiers.DataPoint;
import jsat.distributions.Distribution;
import jsat.distributions.LogUniform;
import jsat.linear.DenseMatrix;
import jsat.linear.... | 11,924 | 29.113636 | 125 | java |
JSAT | JSAT-master/JSAT/src/jsat/datatransform/LinearTransform.java |
package jsat.datatransform;
import jsat.DataSet;
import jsat.classifiers.DataPoint;
import jsat.linear.DenseVector;
import jsat.linear.Vec;
import jsat.math.OnLineStatistics;
/**
* This class transforms all numerical values into a specified range by a linear
* scaling of all the data point values.
*
* @author ... | 5,314 | 23.606481 | 111 | java |
JSAT | JSAT-master/JSAT/src/jsat/datatransform/NominalToNumeric.java |
package jsat.datatransform;
import jsat.DataSet;
import jsat.classifiers.CategoricalData;
import jsat.classifiers.DataPoint;
import jsat.linear.*;
/**
* This transform converts nominal feature values to numeric ones be adding a
* new numeric feature for each possible categorical value for each nominal
* feature... | 2,730 | 27.747368 | 158 | java |
JSAT | JSAT-master/JSAT/src/jsat/datatransform/NumericalToHistogram.java |
package jsat.datatransform;
import java.util.Arrays;
import jsat.DataSet;
import jsat.classifiers.CategoricalData;
import jsat.classifiers.DataPoint;
import jsat.distributions.Distribution;
import jsat.distributions.LogUniform;
import jsat.distributions.discrete.UniformDiscrete;
import jsat.linear.DenseVector;
import... | 6,534 | 30.723301 | 131 | java |
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