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Created August 2, 2012 09:07
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Clustering in Weka
import java.awt.Container;
import java.awt.GridLayout;
import java.util.ArrayList;
import javax.swing.JFrame;
import weka.clusterers.HierarchicalClusterer;
import weka.core.Attribute;
import weka.core.DenseInstance;
import weka.core.EuclideanDistance;
import weka.core.Instances;
import weka.gui.hierarchyvisualizer.HierarchyVisualizer;
public class WekaTest {
static HierarchicalClusterer clusterer;
static Instances data;
/**
* @param args
* @throws Exception
*/
public static void main(String[] args) throws Exception {
// Instantiate clusterer
clusterer = new HierarchicalClusterer();
clusterer.setOptions(new String[] {"-L", "COMPLETE"});
clusterer.setDebug(true);
clusterer.setNumClusters(2);
clusterer.setDistanceFunction(new EuclideanDistance());
clusterer.setDistanceIsBranchLength(true);
// Build dataset
ArrayList<Attribute> attributes = new ArrayList<Attribute>();
attributes.add(new Attribute("A"));
attributes.add(new Attribute("B"));
attributes.add(new Attribute("C"));
data = new Instances("Weka test", attributes, 3);
// Add data
data.add(new DenseInstance(1.0, new double[] { 1.0, 0.0, 1.0 }));
data.add(new DenseInstance(1.0, new double[] { 0.5, 0.0, 1.0 }));
data.add(new DenseInstance(1.0, new double[] { 0.0, 1.0, 0.0 }));
data.add(new DenseInstance(1.0, new double[] { 0.0, 1.0, 0.3 }));
// Cluster network
clusterer.buildClusterer(data);
// Print normal
clusterer.setPrintNewick(false);
System.out.println(clusterer.graph());
// Print Newick
clusterer.setPrintNewick(true);
System.out.println(clusterer.graph());
// Let's try to show this clustered data!
JFrame mainFrame = new JFrame("Weka Test");
mainFrame.setSize(600, 400);
mainFrame.setDefaultCloseOperation(JFrame.EXIT_ON_CLOSE);
Container content = mainFrame.getContentPane();
content.setLayout(new GridLayout(1, 1));
HierarchyVisualizer visualizer = new HierarchyVisualizer(clusterer.graph());
content.add(visualizer);
mainFrame.setVisible(true);
}
}
@fichette
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Is there a way to visualize cluster assignments with kmeans cluster (get the graph)?

@kinjal20
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From my dataset I want to make 50 clusters then collect all centroids of clusters in .csv file? what changes would be in this code?

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