R: Rao's diversity coefficient also called quadratic entropy

divc {ade4}

R Documentation

Rao's diversity coefficient also called quadratic entropy

Calculates Rao's diversity coefficient within samples.

divc(df, dis, scale)

`df`	a data frame with elements as rows, samples as columns, and abundance, presence-absence or frequencies as entries
`dis`	an object of class `dist` containing distances or dissimilarities among elements. If `dis` is NULL, Gini-Simpson index is performed.
`scale`	a logical value indicating whether or not the diversity coefficient should be scaled by its maximal value over all frequency distributions.

Returns a data frame with samples as rows and the diversity coefficient within samples as columns

Sandrine Pavoine pavoine@mnhn.fr

Rao, C.R. (1982) Diversity and dissimilarity coefficients: a unified approach. Theoretical Population Biology, 21, 24–43.

Gini, C. (1912) Variabilit\'a e mutabilit\'a. Universite di Cagliari III, Parte II.

Simpson, E.H. (1949) Measurement of diversity. Nature, 163, 688.

Champely, S. and Chessel, D. (2002) Measuring biological diversity using Euclidean metrics. Environmental and Ecological Statistics, 9, 167–177.

data(ecomor)
dtaxo <- dist.taxo(ecomor$taxo)
divc(ecomor$habitat, dtaxo)

data(humDNAm)
divc(humDNAm$samples, sqrt(humDNAm$distances))

[Package ade4 version 1.7-4 Index]