apqe: Apportionment of Quadratic Entropy

In ade4: Analysis of Ecological Data : Exploratory and Euclidean Methods in Environmental Sciences

Description

The hierarchical apportionment of quadratic entropy defined by Rao (1982).

Usage

apqe(samples, dis = NULL, structures)
## S3 method for class 'apqe'
print(x, full = FALSE, ...)

Arguments

samples	a data frame with haplotypes (or genotypes) as rows, populations as columns and abundance or presence-absence as entries
dis	an object of class dist computed from Euclidean distance. If dis is null, equidistances are used.
structures	a data frame that contains, in the jth row and the kth column, the name of the group of level k to which the jth population belongs
x	an object of class apqe
full	a logical value that indicates whether the original data ('distances', 'samples', 'structures') should be printed
...	... further arguments passed to or from other methods

Value

Returns a list of class apqe

call	call
results	a data frame that contains the components of diversity.

Author(s)

Sandrine Pavoine [e-mail]

References

Rao, C.R. (1982) Diversity: its measurement, decomposition, apportionment and analysis. Sankhya: The Indian Journal of Statistics, A44, 1–22.

Pavoine S. and Dolédec S. (2005) The apportionment of quadratic entropy: a useful alternative for partitioning diversity in ecological data. Environmental and Ecological Statistics, 12, 125–138.

Examples

data(ecomor)
ecomor.phylog <- taxo2phylog(ecomor$taxo)
apqe(ecomor$habitat, ecomor.phylog$Wdist)

Example output

$call
apqe(samples = ecomor$habitat, dis = ecomor.phylog$Wdist)

$results
                 diversity
Between samples 0.04253396
Within samples  0.94719472
Total           0.98972868

ade4 documentation built on May 2, 2019, 5:50 p.m.