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Abstract

Molecular phylogenetics plays a key role in comparative genomics and has increasingly significant impacts on science, industry, government, public health and society. In this paper, we posit that the current phylogenetic protocol is missing two critical steps, and that their absence allows model misspecification and confirmation bias to unduly influence phylogenetic estimates. Based on the potential offered by well-established but under-used procedures, such as assessment of phylogenetic assumptions and tests of goodness of fit, we introduce a new phylogenetic protocol that will reduce confirmation bias and increase the accuracy of phylogenetic estimates.

Item Type:	Article
Authors/Creators:	Jermiin, LS and Catullo, RA and Holland, BR
Keywords:	molecular phylogenetics, confirmation bias, model misspecification, goodness-of-fit
Journal or Publication Title:	NAR Genomics and Bioinformatics
Publisher:	Oxford University Press
ISSN:	2631-9268
DOI / ID Number:	10.1093/nargab/lqaa041
Copyright Information:	Copyright 2020 The Author(s) This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License(http://creativecommons.org/licenses/by-nc/4.0/),
Related URLs:	Google Scholar: Holland, BR UTAS Profile: Holland, BR
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