Diversity Test

Compares Shannon diversity between samples.

test_diversity(object, ...)

# S4 method for CountMatrix
test_diversity(object, adjust = "holm", ...)

Arguments

object	A \(m \times p\) matrix of count data.
...	Further arguments to be passed to internal methods.
adjust	A character string specifying the method for adjusting \(p\) values (see p.adjust).

Value

A numeric matrix.

Details

This test produces two sided pairwise comparisons: it returns a matrix of adjusted \(p\) values.

References

Magurran, A. E. (1988). Ecological Diversity and its Measurement. Princeton, NJ: Princeton University Press. DOI: 10.1007/978-94-015-7358-0.

See also

Other statistics: independance, refine, test_fit()

Author

N. Frerebeau

Examples

## Shannon diversity test
merzbach_count <- as_count(merzbach)
div <- test_diversity(merzbach_count)

## Frequency Increment Test
## Coerce the merzbach dataset to a count matrix
## Keep only decoration types that have a maximum frequency of at least 50
keep <- apply(X = merzbach, MARGIN = 2, FUN = function(x) max(x) >= 50)
merzbach_count <- as_count(merzbach[, keep])

## The data are grouped by phase
## We use the row names as time coordinates (roman numerals)
set_dates(merzbach_count) <- rownames(merzbach)

fit <- test_fit(merzbach_count, simplify = TRUE)