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Neglecting model selection alters phylogenetic inference

https://doi.org/10.1101/849018
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1007/s002390010173openalex-snapshot
The Effect of Branch Length Variation on the Selection of Models of Molecular Evolution
inferredcites →https://doi.org/10.1016/j.tree.2006.10.004openalex-snapshot
Model use in phylogenetics: nine key questions
inferredcites →https://doi.org/10.1038/nmeth.4285openalex-snapshot
ModelFinder: fast model selection for accurate phylogenetic estimates
inferredcites →https://doi.org/10.1038/s41467-019-08822-wopenalex-snapshot
Model selection may not be a mandatory step for phylogeny reconstruction
inferredcites →https://doi.org/10.1080/10635150490522304openalex-snapshot
Model Selection and Model Averaging in Phylogenetics: Advantages of Akaike Information Criterion and Bayesian Approaches Over Likelihood Ratio Tests
inferredcites →https://doi.org/10.1080/10635150801898920openalex-snapshot
Does Choice in Model Selection Affect Maximum Likelihood Analysis?
inferredcites →https://doi.org/10.1093/gbe/evr080openalex-snapshot
Genome-Wide Heterogeneity of Nucleotide Substitution Model Fit
inferredcites →https://doi.org/10.1093/molbev/msi050openalex-snapshot
Accounting for Uncertainty in the Tree Topology Has Little Effect on the Decision-Theoretic Approach to Model Selection in Phylogeny Estimation
inferredcites →https://doi.org/10.1093/molbev/msq168openalex-snapshot
Assessment of Substitution Model Adequacy Using Frequentist and Bayesian Methods
inferredcites →https://doi.org/10.1093/molbev/mst024openalex-snapshot
Ultrafast Approximation for Phylogenetic Bootstrap
inferredcites →https://doi.org/10.1093/molbev/msu300openalex-snapshot
IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies
inferredcites →https://doi.org/10.1093/molbev/msz189openalex-snapshot
ModelTest-NG: A New and Scalable Tool for the Selection of DNA and Protein Evolutionary Models
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a003890openalex-snapshot
Selecting Models of Nucleotide Substitution: An Application to Human Immunodeficiency Virus 1 (HIV-1)
inferredcites →https://doi.org/10.1093/sysbio/syu036openalex-snapshot
Mixture Models of Nucleotide Sequence Evolution that Account for Heterogeneity in the Substitution Process Across Sites and Across Lineages
inferredcites →https://doi.org/10.1093/sysbio/syv021openalex-snapshot
A New Hierarchy of Phylogenetic Models Consistent with Heterogeneous Substitution Rates
inferredcites →https://doi.org/10.1186/1471-2148-10-242openalex-snapshot
Performance of criteria for selecting evolutionary models in phylogenetics: a comprehensive study based on simulated datasets
inferredcites →https://doi.org/10.1186/s12859-016-0985-xopenalex-snapshot
Does the choice of nucleotide substitution models matter topologically?

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1002/9781394317455.ch06openalex-snapshot
Conventional Phylogenetics and Systematics
inferred← citeshttps://doi.org/10.1007/s00239-020-09953-1openalex-snapshot
Protein Evolution in the Flaviviruses
inferred← citeshttps://doi.org/10.1007/s00239-024-10230-8openalex-snapshot
nT4X and nT4M: Novel Time Non-reversible Mixture Amino Acid Substitution Models
inferred← citeshttps://doi.org/10.1007/s00338-021-02072-3openalex-snapshot
Application of phylogenomic tools to unravel anthozoan evolution
inferred← citeshttps://doi.org/10.1093/isd/ixac022openalex-snapshot
Phylogenomic Interrogation Revives an Overlooked Hypothesis for the Early Evolution of the Bee Family Apidae (Hymenoptera: Apoidea), With a Focus on the Subfamily Anthophorinae
inferred← citeshttps://doi.org/10.1101/2023.12.07.570590openalex-snapshot
Phylogenomics reveals an almost perfect polytomy among the almost ungulates ( Paenungulata )
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