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arXiv · 1507.08734

Stochastic safety radius on Neighbor-Joining method and Balanced Minimal Evolution on small trees

Jing Xi·Jin Xie·Ruriko Yoshida·Stefan Forcey
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Abstract

A distance-based method to reconstruct a phylogenetic tree with $n$ leaves takes a distance matrix, $n \times n$ symmetric matrix with $0$s in the diagonal, as its input and reconstructs a tree with $n$ leaves using tools in combinatorics. A safety radius is a radius from a tree metric (a distance matrix realizing a true tree) within which the input distance matrices must all lie in order to satisfy a precise combinatorial condition under which the distance-based method is guaranteed to return a correct tree. A stochastic safety radius is a safety radius under which the distance-based method is guaranteed to return a correct tree within a certain probability. In this paper we investigated stochastic safety radii for the neighbor-joining (NJ) method and balanced minimal evolution (BME) method for $n = 5$.

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Jing Xi, Jin Xie, Ruriko Yoshida, Stefan Forcey. 2015-07-31. Stochastic safety radius on Neighbor-Joining method and Balanced Minimal Evolution on small trees. https://arxiv.org/abs/1507.08734

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