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A new phylogenetic protocol: dealing with model misspecification and confirmation bias in molecular phylogenetics

Citation

Jermiin, LS and Catullo, RA and Holland, BR, A new phylogenetic protocol: dealing with model misspecification and confirmation bias in molecular phylogenetics, NAR Genomics and Bioinformatics, 2, (2) Article lqaa041. ISSN 2631-9268 (2020) [Refereed Article]


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Copyright Statement

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/),

DOI: doi:10.1093/nargab/lqaa041

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 Details

Item Type:Refereed Article
Keywords:molecular phylogenetics, confirmation bias, model misspecification, goodness-of-fit
Research Division:Biological Sciences
Research Group:Evolutionary biology
Research Field:Phylogeny and comparative analysis
Objective Division:Expanding Knowledge
Objective Group:Expanding knowledge
Objective Field:Expanding knowledge in the biological sciences
UTAS Author:Holland, BR (Professor Barbara Holland)
ID Code:141853
Year Published:2020
Deposited By:Mathematics
Deposited On:2020-11-26
Last Modified:2021-02-16
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