overlap {microbiome} | R Documentation

## Overlap Measure

### Description

Quantify microbiota 'overlap' between samples.

### Usage

    overlap(x, detection = 0)

### Arguments

`x` | `phyloseq-class` object
`detection` | Detection threshold.

### Value

Overlap matrix

### Author(s)

Contact: Leo Lahti microbiome-admin@googlegroups.com

### References

Bashan, A., Gibson, T., Friedman, J. et al. Universality of human microbial dynamics. Nature 534, 259–262 (2016). https://doi.org/10.1038/nature18301

### Examples

    data(atlas1006)
    o <- overlap(atlas1006, detection = 0.1/100)

[Package microbiome version 1.12.0 Index]