Phylogenetic effective sample size

2015/07/31 by Krzysztof Bartoszek · 18 citations
Biochemistry, Genetics and Molecular Biology · Earth and Planetary Sciences · Environmental Science · Mathematics · #Animal Ecology and Behavior Studies #Biology #Clade #Ecology and Vegetation Dynamics Studies #Evolution and Paleontology Studies #Evolutionary biology #Genetics #Mathematics #Phylogenetic comparative methods #Phylogenetic tree #Physics #Regression #Sample (material) #Sample size determination #Statistics #msc:62B10 #msc:62P10 #msc:92-08 #msc:92B10 #msc:92B15 #msc:94A17 #q-bio.PE #stat.AP

paper · pdf · doi:10.1016/j.jtbi.2016.06.026

published in Journal of Theoretical Biology 407, 371-386 (Elsevier BV)

arxiv created 2016/05/11 · openalex publication_date 2016/06/27 · arxiv updated 2020/11/23 · openalex created_date 2025/10/10 · openalex updated_date 2026/08/05

Abstract

In this paper I address the question - how large is a phylogenetic sample I propose a definition of a phylogenetic effective sample size for Brownian motion and Ornstein-Uhlenbeck processes - the regression effective sample size. I discuss how mutual information can be used to define an effective sample size in the non-normal process case and compare these two definitions to an already present concept of effective sample size (the mean effective sample size). Through a simulation study I find that the AICc is robust if one corrects for the number of species or effective number of species. Lastly I discuss how the concept of the phylogenetic effective sample size can be useful for biodiversity quantification, identification of interesting clades and deciding on the importance of phylogenetic correlations.

Citations

• The conditioned reconstructed process
• Conservation evaluation and phylogenetic diversity

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