Stochastic Safety Radius on UPGMA

Unweighted Pair Group Method with Arithmetic Mean (UPGMA) is one of the most popular distance-based methods to reconstruct an equidistant phylogenetic tree from a distance matrix computed alignment sequences. Since we use trees as gene for phylogenomic analyses under multi-species coalescent model and since input each in genome estimated via maximum likelihood estimators, it important conduct robust analysis on UPGMA. Stochastic safety radius, introduced by Steel Gascuel, provides lower bound probability that reconstruction method returns true topology given matrix. In this article, compute stochastic radius UPGMA n leaves. Computational experiments show improved gap between empirical probabilities random samples UPGMA, increasing confidence phylogenic results.