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Efficient Algorithms for K-Means Clustering  Tapas Kanungo, David M. Mount, Nathan S. Netanyahu, Christine D. Piatko, Ruth Silverman, and Angela Y. Wu
fastcluster  Daniel Müllner - fast hierarchical clustering routines for R and Python
HDBSCAN   - a suite of tools to use unsupervised learning to find clusters, or dense regions, of a dataset.