hill {BAT}R Documentation

Hill numbers.

Description

Hill numbers with possible rarefaction, multiple sites simultaneously.

Usage

hill(comm, q = 0, raref = 0, runs = 100)

Arguments

comm

A sites x species matrix, with abundance data.

q

Hill number order: q(0) = species richness, q(1) ~ Shannon diversity, q(2) ~ Simpson diversity.

raref

An integer specifying the number of individuals for rarefaction (individual based). If raref < 1 no rarefaction is made. If raref = 1 rarefaction is made by the minimum abundance among all sites. If raref > 1 rarefaction is made by the abundance indicated. If not specified, default is 0.

runs

Number of resampling runs for rarefaction. If not specified, default is 100.

Details

Hill numbers are based on the number of equally abundant species that would match the current diversity. Depending on the single parameter they give more or less weight to rare species (Jost 2002).

Value

A matrix of sites x diversity values (either "Hill q" OR "Mean, Median, Min, LowerCL, UpperCL and Max").

References

Hill, M.O. (1973). Diversity and evenness: a unifying notation and its consequences. Ecology, 54: 427-432.

Examples

comm <- matrix(c(0,0,1,1,0,0,100,1,0,0), nrow = 2, ncol = 5, byrow = TRUE)
hill(comm)
hill(comm, q = 1)
hill(comm, q = 2, 1)

[Package BAT version 2.6.0 Index]