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A dendrite method for cluster analysis
Abstract
A method for identifying clusters of points in a multidimensional Euclidean space is described and its application to taxonomy considered. It reconciles, in a sense, two different approaches to the investigation of the spatial relationships between the points, viz., the agglomerative and the divisive methods. A graph, the shortest dendrite of Florek etal. (1951a), is constructed on a nearest neighbour basis and then divided into clusters by applying the criterion of minimum within cluster sum of squares. This procedure ensures an effective reduction of the number of possible splits. The method may be applied to a dichotomous division, but is perfectly suitable also for a global division into any number of clusters. An informal indicator of the "best number" of clusters is suggested. It is a"variance ratio criterion" giving some insight into the structure of the points. The method is illustrated by three examples, one of which is original. The results obtained by the dendrite method are compared with those obtained by using the agglomerative method or Ward (1963) and the divisive method of Edwards and Cavalli-Sforza (1965).
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The optimal number of clusters was determined using the Calinski-Harabasz index and further verified by average silhouette width and prediction strength.
“Next, we used the Calinski-Harabasz (CH) index [59] to determine the optimal number of clusters, and we further verified this by calculating the average silhouette width of the samples, which is a measure of the separation of samples within one cluster from those of another cluster, as well as the prediction strength, another measure of the efficiency of clustering.”
From Citizen science charts two major “stomatotypes” in the oral microbiome of adolescents and reveals links with habits and drinking water composition (2018) · cites this paper as [59]
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“The minimum number of samples per cluster is selected by iterating over 5,000, 10,000, 20,000, and 30,000 samples and selecting the one which maximizes the average Calinksi-Harabasz index (Cali´nski and Harabasz, 1974), 13 measured via 5-fold cross-validation.”
Metadata
- Authors
- Caliński, T., & Harabasz, J.
- Venue
- Communications in Statistics
- Publisher
- Informa UK Limited
- Published
- 1974-01
- Volume
- 3
- Issue
- 1
- Pages
- 1-27
- ISSN
- 0090-3272
- Cited by
- 4,480
- References
- 0
- Language
- en
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