genieclust: Fast and Robust Hierarchical Clustering with Noise Point Detection

The Genie algorithm (Gagolewski, 2021 <doi:10.1016/j.softx.2021.100722>) is a robust and outlier-resistant hierarchical clustering method (Gagolewski, Bartoszuk, Cena, 2016 <doi:10.1016/j.ins.2016.05.003>). This package features its faster and more powerful version. It allows clustering with respect to mutual reachability distances, enabling it to act as a noise point detector or a version of 'HDBSCAN*' that can identify a predefined number of clusters. The package also features an implementation of the Gini and Bonferroni inequality indices, external cluster validity measures (e.g., the normalised clustering accuracy, the adjusted Rand index, the Fowlkes-Mallows index, and normalised mutual information), and internal cluster validity indices (e.g., the Calinski-Harabasz, Davies-Bouldin, Ball-Hall, Silhouette, and generalised Dunn indices). The 'Python' version of 'genieclust' is available via 'PyPI'.

Version: 1.2.0
Imports: Rcpp, stats, utils, quitefastmst
LinkingTo: Rcpp
Suggests: datasets
Published: 2025-07-24
DOI: 10.32614/CRAN.package.genieclust
Author: Marek Gagolewski ORCID iD [aut, cre, cph], Maciej Bartoszuk [ctb], Anna Cena [ctb], Peter M. Larsen [ctb]
Maintainer: Marek Gagolewski <marek at gagolewski.com>
BugReports: https://github.com/gagolews/genieclust/issues
License: AGPL-3
URL: https://genieclust.gagolewski.com/, https://clustering-benchmarks.gagolewski.com/, https://github.com/gagolews/genieclust
NeedsCompilation: yes
SystemRequirements: OpenMP, C++17
Citation: genieclust citation info
Materials: NEWS
In views: Cluster
CRAN checks: genieclust results

Documentation:

Reference manual: genieclust.html , genieclust.pdf

Downloads:

Package source: genieclust_1.2.0.tar.gz
Windows binaries: r-devel: genieclust_1.1.6.zip, r-release: genieclust_1.2.0.zip, r-oldrel: genieclust_1.2.0.zip
macOS binaries: r-release (arm64): genieclust_1.1.6.tgz, r-oldrel (arm64): genieclust_1.1.6.tgz, r-release (x86_64): genieclust_1.2.0.tgz, r-oldrel (x86_64): genieclust_1.2.0.tgz
Old sources: genieclust archive

Reverse dependencies:

Reverse depends: genie, omada
Reverse imports: Kmedians, modACDC, RGMM
Reverse suggests: partition

Linking:

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