gamPred: calculation of stability using an generalized additive model.

In betaStability: Quantify the Compositional Stability of Each Community Based on a Single Sampling Event

calculation of stability using an generalized additive model.

Description

This function will take the community count table and the environmental metadata table as input, and calculate the stability of each site using a generalized additive model (GAM). Alternatively, if no dissimilarity matrix of the community is provided, the function will calculate the community dissimilarity based on Bray-Curtis distance and use it. In GAM, the prediction results are expected to perform better than the linear models.

Usage

gamPred(
  comtable,
  envmeta,
  comdist = NULL,
  sitenames = NULL,
  GAM.dist.method = "manhattan"
)

Arguments

comtable	The community table
envmeta	The environmental metadata table/matrix
comdist	The community dissimilarity matrix (optional, default: NULL)
sitenames	The names of the site (optional, default: NULL)
GAM.dist.method	The method for calculating dist (default: "manhattan")

Value

a column vector of predicted stability values for each site

Examples

library(vegan)
data(varespec)
data(varechem)
example.stability_GAM <- gamPred(varespec, varechem)

betaStability documentation built on June 5, 2026, 5:08 p.m.