Simulations of Sequence Evolution: How (Un)realistic They Are and Why.

ABSTRACT:

Motivation

Simulating multiple sequence alignments (MSAs) using probabilistic models of sequence evolution plays an important role in the evaluation of phylogenetic inference tools and is crucial to the development of novel learning-based approaches for phylogenetic reconstruction, for instance, neural networks. These models and the resulting simulated data need to be as realistic as possible to be indicative of the performance of the developed tools on empirical data and to ensure that neural networks trained on simulations perform well on empirical data. Over the years, numerous models of evolution have been published with the goal to represent as faithfully as possible the sequence evolution process and thus simulate empirical-like data. In this study, we simulated DNA and prote

SUBMITTER: Trost J 

PROVIDER: S-EPMC10768886 | biostudies-literature | 2024 Jan

REPOSITORIES: biostudies-literature