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A Survey of Popular R Packages for Cluster Analysis

Author

Listed:
  • Abby Flynt

    (Bucknell University)

  • Nema Dean

    (University of Glasgow)

Abstract

Cluster analysis is a set of statistical methods for discovering new group/class structure when exploring data sets. This article reviews the following popular libraries/commands in the R software language for applying different types of cluster analysis: from the stats library, the kmeans , and hclust functions; the mclust library; the poLCA library; and the clustMD library. The packages/functions cover a variety of cluster analysis methods for continuous data, categorical data, or a collection of the two. The contrasting methods in the different packages are briefly introduced, and basic usage of the functions is discussed. The use of the different methods is compared and contrasted and then illustrated on example data. In the discussion, links to information on other available libraries for different clustering methods and extensions beyond basic clustering methods are given. The code for the worked examples in Section 2 is available at http://www.stats.gla.ac.uk/∼nd29c/Software/ClusterReviewCode.R

Suggested Citation

  • Abby Flynt & Nema Dean, 2016. "A Survey of Popular R Packages for Cluster Analysis," Journal of Educational and Behavioral Statistics, , vol. 41(2), pages 205-225, April.
    • Handle: RePEc:sae:jedbes:v:41:y:2016:i:2:p:205-225
    DOI: 10.3102/1076998616631743
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    References listed on IDEAS

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    1. Azzalini, Adelchi & Menardi, Giovanna, 2014. "Clustering via Nonparametric Density Estimation: The R Package pdfCluster," Journal of Statistical Software, Foundation for Open Access Statistics, vol. 57(i11).
    2. Grün, Bettina & Leisch, Friedrich, 2008. "FlexMix Version 2: Finite Mixtures with Concomitant Variables and Varying and Constant Parameters," Journal of Statistical Software, Foundation for Open Access Statistics, vol. 28(i04).
    3. Fraley C. & Raftery A.E., 2002. "Model-Based Clustering, Discriminant Analysis, and Density Estimation," Journal of the American Statistical Association, American Statistical Association, vol. 97, pages 611-631, June.
    4. Linzer, Drew A. & Lewis, Jeffrey B., 2011. "poLCA: An R Package for Polytomous Variable Latent Class Analysis," Journal of Statistical Software, Foundation for Open Access Statistics, vol. 42(i10).
    5. Nema Dean & Rebecca Nugent, 2013. "Clustering student skill set profiles in a unit hypercube using mixtures of multivariate betas," Advances in Data Analysis and Classification, Springer;German Classification Society - Gesellschaft für Klassifikation (GfKl);Japanese Classification Society (JCS);Classification and Data Analysis Group of the Italian Statistical Society (CLADAG);International Federation of Classification Societies (IFCS), vol. 7(3), pages 339-357, September.
    6. Christian Hennig & Tim F. Liao, 2013. "How to find an appropriate clustering for mixed-type variables with application to socio-economic stratification," Journal of the Royal Statistical Society Series C, Royal Statistical Society, vol. 62(3), pages 309-369, May.
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