Reconstruction of probability phylogenetic trees with substitution models

Abstract

By the evolutionary theory all existing/extinct organisms are descended from a common ancestor. Hence, given a set of organisms, a phylogenetic tree (phylogeny) can be reconstructed showing the evolutionary relationships among a set of biological organisms. The commonly used methods for reconstruction do not make full use of the input information and uncertainty exists in the reconstructed trees. Recently the authors proposed a new probability representation model of phylogenetic trees, which is a natural and logical solution that overcomes the drawbacks in the currently used phylogeny reconstruction techniques. In this representation model the ancestor of any subset of given sequences is a ..