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 1.14.0 Index]