Cluster Analysis Python Packages

hdbscan

A high performance implementation of HDBSCAN clustering.

sequenzo

A fast, scalable, and intuitive Python package in sequence analysis.

genieclust

Genie: Fast and Robust Hierarchical Clustering

quitefastmst

quitefastmst: Euclidean and Mutual Reachability Minimum Spanning Trees

pyclustertend

A python package to assess cluster tendency

trcc

Density-peak clustering with path-density mutual-reachability merging. Sub-quadratic O(n log n) via a C++ pybind11/nanoflann kd-tree. 30× speedup at n=50k.

lumbermark

Lumbermark: Resistant Clustering via Chopping Up Mutual Reachability Minimum Spanning Trees

s-dbw

S_Dbw validity index. Adapted for DBSCAN (and similar)

persistable-clustering

Density-based clustering for exploratory data analysis based on multi-parameter persistence

finchpy

A Python implementation of "FINCH Clustering Algorithm (CVPR 2019)"

hopkins-statistic

Compute the Hopkins statistic to assess clustering tendency.

clustering-benchmarks

A Framework for Benchmarking Clustering Algorithms

gpmix

A library for efficient uncovering of latent cluster labels in functional data from Gaussian process mixtures.

clusterking

Cluster sets of histograms/curves, in particular kinematic distributions in high energy physics.

edtools

Collection of tools for automated processing and clustering of electron diffraction data

localclustering

Python 3 implementation and documentation of the Hermina-Janos local graph clustering algorithm.

cluster-ss

Python cluster-ss Package

bambird

Unsupervised classification to improve the quality of a bird song recording dataset. https://doi.org/10.1016/j.ecoinf.2022.101952

silhouette-upper-bound

An upper bound of the Average Silhouette Width.

composite-silhouette

A clustering evaluation framework that combines micro- and macro-averaged silhouette scores into a composite metric using statistical weighting.

categorical-cluster

My algo and library for clustering categorical data

pdfsegmenter

This library builds a graph-representation of the content of PDFs. The graph is then clustered, resulting page segments are classified and returned. Tables are retrieved formatted as a CSV.

pybdynamics

Python package for simulation and data analysis of interacting colloidal particle systems.

clusterlens

ClusterLens is an interpretability engine for clustered / segmented data.