Chat: Calculate expected sample coverage C_hat

In MoBiodiv/mobr: Measurement of Biodiversity

Calculate expected sample coverage C_hat

Description

Returns expected sample coverage of a sample 'x' for a smaller than observed sample size ‘m' (Chao & Jost, 2012). This code was copied from INEXT’s internal function iNEXT::Chat.Ind (Hsieh et al 2016).

Usage

Chat(x, m)

Arguments

x	integer vector (species abundances)
m	integer a number of individuals that is smaller than observed total community abundance.

Value

a numeric value that is the expected coverage.

References

Chao, A., and L. Jost. 2012. Coverage-based rarefaction and extrapolation: standardizing samples by completeness rather than size. Ecology 93:2533–2547.

Anne Chao, Nicholas J. Gotelli, T. C. Hsieh, Elizabeth L. Sander, K. H. Ma, Robert K. Colwell, and Aaron M. Ellison 2014. Rarefaction and extrapolation with Hill numbers: a framework for sampling and estimation in species diversity studies. Ecological Monographs 84:45-67.

T. C. Hsieh, K. H. Ma and Anne Chao. 2024. iNEXT: iNterpolation and EXTrapolation for species diversity. R package version 3.0.1 URL: http://chao.stat.nthu.edu.tw/wordpress/software-download/.

Examples

data(inv_comm)
# What is the expected coverage at a sample size of 50 at the gamma scale?
Chat(colSums(inv_comm), 50)

MoBiodiv/mobr documentation built on Oct. 26, 2024, 10:51 a.m.