Geodesic
Fast algorithm for finding mean minimum distances
Modelirovanie i analiz informacionnyh sistem, Tome 14 (2007) no. 3, pp. 50-52.

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Let $\xi_0,\dots,\xi_n$ be strings drawn from some finite alphabet. In this paper we describe an algorithm for finding mean minimum distances between strings $\xi_0,\dots,\xi_s$ for all $s\le n$. The complexity of the algorithm is $\mathcal O(nm)$, where $m$ is the length of strings. 
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N. E. Timofeeva. Fast algorithm for finding mean minimum distances. Modelirovanie i analiz informacionnyh sistem, Tome 14 (2007) no. 3, pp. 50-52. http://geodesic.mathdoc.fr/item/MAIS_2007_14_3_a4/

[1] V. V. Maiorov, E. A. Timofeev, “Statisticheskaya otsenka obobschennykh razmernostei”, Mat. zametki, 71:5 (2002), 697–712 | MR | Zbl

[2] A. Kaltchenko, En-hui Yang, N. Timofeeva, “Entropy Estimators with Almost Sure Convergence and an $O(n^{-1})$ Variance”, Information Theory Workshop ITW '07 (IEEE 2-6 Sept. 2007), 2007, 644–649 | MR