Relative model selection of evolutionary substitution models can be sensitive to multiple sequence alignment uncertainty.

ABSTRACT:

Background

Multiple sequence alignments (MSAs) represent the fundamental unit of data inputted to most comparative sequence analyses. In phylogenetic analyses in particular, errors in MSA construction have the potential to induce further errors in downstream analyses such as phylogenetic reconstruction itself, ancestral state reconstruction, and divergence time estimation. In addition to providing phylogenetic methods with an MSA to analyze, researchers must also specify a suitable evolutionary model for the given analysis. Most commonly, researchers apply relative model selection to select a model from candidate set and then provide both the MSA and the selected model as input to subsequent analyses. While the influence of MSA errors has been explored for most stages of phylogenet

SUBMITTER: Spielman SJ 

PROVIDER: S-EPMC8628390 | biostudies-literature | 2021 Nov

REPOSITORIES: biostudies-literature