| 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, and so on... |
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 = 4, 1)