entropart (version 1.1.3)

Originality.Species: Originality of species

Description

Calculates the originality of species according to the order of diversity.

Usage

Originality.Species(Tree, q, CheckArguments = TRUE)

Arguments

Tree

An object of class hclust or phylog. The tree must be ultrametric.

q

A number.

CheckArguments

Logical; if TRUE, the function arguments are verified. Should be set to FALSE to save time when the arguments have been checked elsewhere.

Value

• A named vector of frequencies.

Details

The originality of species is their frequency resulting in the maximum value of generalized entropy of order $q$. Originality was introduced by Pavoine et al. (2005) for Rao quadratic entropy ($q=2$). It can be calculated exactly by originality. For other orders of diversity, numeric optimization is required.

References

Pavoine, S., Ollier, S. and Dufour, A.-B. (2005). Is the originality of a species measurable? Ecology Letters 8: 579-586.

See Also

originality

Examples

data(Paracou618)
  # Calculate Originality of a species according to a simple functional tree, q=1
  (Frequencies <- Originality.Species(EightSpTree, 1))
  # Plot the result
  if (require(ade4, quietly = TRUE)) {
    dotchart.phylog(EightSpTree, Frequencies)
  }