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Agglomerative hierarchical clustering

Agglomerative hierarchical clustering analysis and visualization implemented in Java

License

License
GroupId

GroupId

com.apporiented
ArtifactId

ArtifactId

hierarchical-clustering
Last Version

Last Version

1.2.0
Release Date

Release Date
Type

Type

jar
Description

Description

Agglomerative hierarchical clustering
Agglomerative hierarchical clustering analysis and visualization implemented in Java
Project URL

Project URL

https://github.com/lbehnke/hierarchical-clustering-java
Project Organization

Project Organization

Lars Behnke
Source Code Management

Source Code Management

https://github.com/lbehnke/hierarchical-clustering-java

Download hierarchical-clustering

Filename Size
hierarchical-clustering-1.2.0.pom
hierarchical-clustering-1.2.0.jar 28 KB
hierarchical-clustering-1.2.0-sources.jar 18 KB
hierarchical-clustering-1.2.0-javadoc.jar 119 KB
Browse

How to add to project

<!-- https://jarcasting.com/artifacts/com.apporiented/hierarchical-clustering/ -->
<dependency>
    <groupId>com.apporiented</groupId>
    <artifactId>hierarchical-clustering</artifactId>
    <version>1.2.0</version>
</dependency>
// https://jarcasting.com/artifacts/com.apporiented/hierarchical-clustering/
implementation 'com.apporiented:hierarchical-clustering:1.2.0'
// https://jarcasting.com/artifacts/com.apporiented/hierarchical-clustering/
implementation ("com.apporiented:hierarchical-clustering:1.2.0")
'com.apporiented:hierarchical-clustering:jar:1.2.0'
<dependency org="com.apporiented" name="hierarchical-clustering" rev="1.2.0">
  <artifact name="hierarchical-clustering" type="jar" />
</dependency>
@Grapes(
@Grab(group='com.apporiented', module='hierarchical-clustering', version='1.2.0')
)
libraryDependencies += "com.apporiented" % "hierarchical-clustering" % "1.2.0"
[com.apporiented/hierarchical-clustering "1.2.0"]

Dependencies

test (2)

Group / Artifact Type Version
junit : junit jar 4.11
commons-io : commons-io jar 2.5

Project Modules

There are no modules declared in this project.

hierarchical-clustering-java

Implementation of an agglomerative hierarchical clustering algorithm in Java. Different linkage approaches are supported:

  • Single Linkage
  • Complete Linkage

What you put in

Pass a distance matrix and a cluster name array along with a linkage strategy to the clustering algorithm:

String[] names = new String[] { "O1", "O2", "O3", "O4", "O5", "O6" };
double[][] distances = new double[][] { 
    { 0, 1, 9, 7, 11, 14 },
    { 1, 0, 4, 3, 8, 10 }, 
    { 9, 4, 0, 9, 2, 8 },
    { 7, 3, 9, 0, 6, 13 }, 
    { 11, 8, 2, 6, 0, 10 },
    { 14, 10, 8, 13, 10, 0 }};

ClusteringAlgorithm alg = new DefaultClusteringAlgorithm();
Cluster cluster = alg.performClustering(distances, names,
    new AverageLinkageStrategy());

Alternatively, you can pass a pdist-like matrix containing one row:

String[] names = new String[] { "O1", "O2", "O3", "O4", "O5", "O6" };
double[][] pdist = new double[][] {
			{1, 9, 7, 11 ,14 ,4 ,3 ,8 ,10 ,9 ,2 ,8 ,6 ,13 ,10}
	};
ClusteringAlgorithm alg = new PDistClusteringAlgorithm();
Cluster cluster = alg.performClustering(pdist, names, new MinimumLinkageStrategy());

What you get out

The algorithm creates a Cluster instance representing an hierachy of cluster nodes based on their distances. You may want to visualize the result using the Swing component DendrogramPanel:

DendrogramPanel dp = new DendrogramPanel();
dp.setModel(cluster);

When embedded into a JFrame the dendrogram panel should display this:

Screenshot

License

Licensed under the Apache License, Version 2.0 (the "License"); you may not use this file except in compliance with the License. You may obtain a copy of the License at (http://www.apache.org/licenses/LICENSE-2.0). Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.

Versions

Version
1.2.0
1.1.0
1.0.3