correlate: Coabundance Analysis

In danlooo/coabundance: What the Package Does (One Line, Title Case)

Description

Coabundance Analysis

Usage

correlate(data, method = "sparcc", ...)

Arguments

data	matrix or data frame with abundance count data
method	character of coabundance method. One of 'sparcc', 'mb', 'pearson', or 'spearman'
...	arguments passed to selected function (one of correlate_sparcc, correlate_mb, correlate_spearman, or correlate_pearson)

Details

The option method (sparcc by default) defines the method use to calculate the interaction between pairs of coabundant taxa:

• pearson: Pearson correlation coefficient

• spearman: Spearman's rank correlation coefficient

• mb: Inverse Covariance based on \insertCitembcoabundance as implemented in \insertCitespiec_easicoabundance

• sparcc: SparCC correlation based on \insertCitesparcccoabundance as implemented in \insertCitespiec_easicoabundance or \insertCitefastsparcoabundance

References

\insertRef

mbcoabundance

\insertRef

spiec_easicoabundance

\insertRef

sparcccoabundance

\insertRef

fastsparcoabundance

danlooo/coabundance documentation built on Jan. 24, 2021, 9:16 a.m.