Co-Occurrence

## Usage

```
occurrence(object, ...)
# S4 method for matrix
occurrence(object)
# S4 method for data.frame
occurrence(object)
```

## 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()`

.- ...
Currently not used.

## Value

A stats::dist object.

## Details

A co-occurrence matrix is a symmetric matrix with zeros on its main diagonal, which works out how many times each pairs of taxa/types occur together in at least one sample.

## See also

Other diversity measures:
`heterogeneity()`

,
`plot_diversity`

,
`plot_rarefaction`

,
`profiles()`

,
`rarefaction()`

,
`richness()`

,
`she()`

,
`similarity()`

,
`simulate()`

,
`turnover()`