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    Estimating the Number of Species in Microbial Diversity Studies


    Bunge, John and Willis, Amy and Walsh, Fiona (2014) Estimating the Number of Species in Microbial Diversity Studies. The Annual Review of Statistics and its Applications, 1. pp. 427-445.

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    Abstract

    For decades, statisticians have studied the species problem: how to estimate the total number of species, observed plus unobserved,in a population.This problem dates at least as far back as 1943, to a paper by R.A. Fisher. These methods have found many applications in general ecology,but their importance has grown considerably in recent years, driven by the introduction of high-throughput DNA sequencing into microbial ecology. We examine the state of the art in terms of estimating the total number of taxa in a microbial population from a sample of sequences. We focus mainly on estimating the number of species within a single population (α-diversity), but we also briefly consider statistical inference for comparing the numbers of species across populations (β-diversity). We discuss the full range of statistical techniques, parametric and nonparametric as well as frequentist and Bayesian,and specific implications of their use in microbial diversity studies. We conclude with some recommendations for theoretical investigation and computational tool development.

    Item Type: Article
    Keywords: Estimating; Species; Microbial Diversity Studies;
    Academic Unit: Faculty of Science and Engineering > Biology
    Item ID: 12674
    Identification Number: https://doi.org/10.1146/annurev-statistics-022513-115654
    Depositing User: Fiona Walsh
    Date Deposited: 31 Mar 2020 12:55
    Journal or Publication Title: The Annual Review of Statistics and its Applications
    Publisher: Annual Reviews
    Refereed: Yes
    URI:

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