TreeMerge: a new method for improving the scalability of species tree estimation methods.

ABSTRACT:

Motivation

At RECOMB-CG 2018, we presented NJMerge and showed that it could be used within a divide-and-conquer framework to scale computationally intensive methods for species tree estimation to larger datasets. However, NJMerge has two significant limitations: it can fail to return a tree and, when used within the proposed divide-and-conquer framework, has O(n5) running time for datasets with n species.

Results

Here we present a new method called 'TreeMerge' that improves on NJMerge in two ways: it is guaranteed to return a tree and it has dramatically faster running time within the same divide-and-conquer framework-only O(n2) time. We use a simulation study to evaluate TreeMerge in the context of multi-locus species tree estimation with two leading methods, ASTRAL-III and

SUBMITTER: Molloy EK 

PROVIDER: S-EPMC6612878 | biostudies-literature | 2019 Jul

REPOSITORIES: biostudies-literature