skbio.diversity.alpha.mcintosh_d

skbio.diversity.alpha.mcintosh_d(counts)[source]

Calculate McIntosh dominance index D.

State: Experimental as of 0.4.0.

McIntosh dominance index D is defined as:

\[D = \frac{N - U}{N - \sqrt{N}}\]

where \(N\) is the total number of individuals in the sample and \(U\) is defined as:

\[U = \sqrt{\sum{{n_i}^2}}\]

where \(n_i\) is the number of individuals in the \(i^{\text{th}}\) OTU.

Parameters:

counts : 1-D array_like, int

Vector of counts.

Returns:

double

McIntosh dominance index D.

See also

mcintosh_e

Notes

The index was proposed in [R37]. The implementation here is based on the description given in the SDR-IV online manual [R38].

References

[R37](1, 2) McIntosh, R. P. 1967 An index of diversity and the relation of certain concepts to diversity. Ecology 48, 1115-1126.
[R38](1, 2) http://www.pisces-conservation.com/sdrhelp/index.html