FastMulRFS: fast and accurate species tree estimation under generic gene duplication and loss models.

ABSTRACT:

Motivation

Species tree estimation is a basic part of biological research but can be challenging because of gene duplication and loss (GDL), which results in genes that can appear more than once in a given genome. All common approaches in phylogenomic studies either reduce available data or are error-prone, and thus, scalable methods that do not discard data and have high accuracy on large heterogeneous datasets are needed.

Results

We present FastMulRFS, a polynomial-time method for estimating species trees without knowledge of orthology. We prove that FastMulRFS is statistically consistent under a generic model of GDL when adversarial GDL does not occur. Our extensive simulation study shows that FastMulRFS matches the accuracy of MulRF (which tries to solve the same optimiz

SUBMITTER: Molloy EK 

PROVIDER: S-EPMC7355287 | biostudies-literature | 2020 Jul

REPOSITORIES: biostudies-literature