heterogeneity: Heterogeneity

In tesselle/tabula: Analysis and Visualization of Archaeological Count Data

Heterogeneity

Description

Computes an heterogeneity or a dominance index.

Usage

heterogeneity(object, ...)

## S4 method for signature 'matrix'
heterogeneity(
  object,
  ...,
  method = c("shannon", "simpson", "berger", "boone", "brillouin", "mcintosh")
)

## S4 method for signature 'data.frame'
heterogeneity(
  object,
  ...,
  method = c("shannon", "simpson", "berger", "boone", "brillouin", "mcintosh")
)

Arguments

object	A m \times p numeric matrix or data.frame of count data (absolute frequencies giving the number of individuals for each category, i.e. a contingency table). A data.frame will be coerced to a numeric matrix via data.matrix().
...	Further arguments to be passed to internal methods (see below).
method	A character string specifying the index to be computed (see details). Any unambiguous substring can be given.

Details

The following heterogeneity index are available (see Magurran 1988 for details):

berger

Berger-Parker dominance index.

boone

Boone heterogeneity measure.

brillouin

Brillouin diversity index.

mcintosh

McIntosh dominance index.

shannon

Shannon-Wiener diversity index.

simpson

Simpson dominance index.

The berger, mcintosh and simpson methods return a dominance index, not the reciprocal or inverse form usually adopted, so that an increase in the value of the index accompanies a decrease in diversity.

Value

An HeterogeneityIndex object.

Author(s)

N. Frerebeau

References

Magurran, A. E. (1988). Ecological Diversity and its Measurement. Princeton, NJ: Princeton University Press. \Sexpr[results=rd]{tools:::Rd_expr_doi("10.1007/978-94-015-7358-0")}.

See Also

index_berger(), index_boone(), index_brillouin(), index_mcintosh(), index_shannon(), index_simpson()

Other diversity measures: diversity(), evenness(), occurrence(), plot.DiversityIndex(), plot.RarefactionIndex(), profiles(), rarefaction(), richness(), she(), similarity(), simulate(), turnover()

Examples

## Data from Conkey 1980, Kintigh 1989
data("cantabria")

## Alpha diversity
diversity(cantabria)

## Shannon diversity index
(h <- heterogeneity(cantabria, method = "shannon"))
(e <- evenness(cantabria, method = "shannon"))

as.data.frame(h)

tesselle/tabula documentation built on June 15, 2025, 12:08 a.m.