smoothdist: Smoothed density distribution
In peterbat1/fitMaxnet: Fit MaxEnt Niche Models Using maxnet

smoothdist

R Documentation

Smoothed density distribution

Description

A function to generate a smoothed density function of observed probability of presence

Usage

smoothdist(pred, res, smoothing_df = 4)

Arguments

`pred`	Numeric. Vector of model predictions for combined occurrence and background points.
`res`	Numeric. Vector expected presence and background values (referred in the function as 'res' = 'response variable'); 0 = expected background, 1 = expected presence.
`smoothing_df`	Numeric. Degrees of freedom for a natural cubic spline fitted to model predictions at combined occurrence and background locations.

Details

This is an adaptation of code published by Phillips and Elith (2010. POC plots: calibrating species distribution models with presence-only data. Ecology 91:2476–2484).

It is normally called by the function POCplot.

The original script used a default smoothing degrees of freedom (smoothing_df) of 6, but trials during development of this implementation suggest that a better default value is 4.

peterbat1/fitMaxnet documentation built on Sept. 17, 2024, 10:50 p.m.