Convert feature abundances to presence / absence

This function converts the feature abundance matrix in an mmo object into a binary presence/absence matrix and stores it as a new component of the mmo object (mmo$feature_presence).

Usage

FeaturePresence(mmo, threshold = 1)

Arguments

mmo

The mmo object

threshold

Numeric threshold for presence (default = 1). Values > threshold are set to 1, values <= threshold or NA are set to 0.

Value

The mmo object with a new presence/absence table stored in mmo$feature_presence

Details

A feature is considered present (1) if its abundance is greater than a specified threshold, and absent (0) otherwise.

This function does NOT overwrite mmo$feature_data.

Examples

if (FALSE) {
mmo <- FeaturePresence(mmo, threshold = 1)
}