kuenm_feval_swd: Evaluation of final Maxent models with independent data in...

In manubio13/ku.enm: Detailed development of ecological niche models using Maxent

Evaluation of final Maxent models with independent data in SWD format

Description

kuenm_feval_swd evaluates final Maxent models in terms of statistical significance (partial ROC) and omission rates with a user-defined threshold (E). This function works for models created in SWD format.

Usage

kuenm_feval_swd(path, occ.joint, occ.ind, replicates, out.eval, threshold = 5,
                rand.percent = 50, iterations = 500)

Arguments

path	(character) directory in which folders containing final models were created.
occ.joint	(character) the csv file with training and testing occurrences combined, or the file containing occurrences used to create final models; columns must be: species, longitude, latitude, and two or more columns representing distinct variables.
occ.ind	(character) the name of the csv file with independent occurrences for model evaluation; these occurrences were not used when creating final models; columns as in occ.joint. Prepare this file with prep_independent_swd.
replicates	(logical) whether or not final models were created with replicates.
out.eval	(character) name of the folder where evaluation results will be written.
threshold	(numeric) the percentage of omission error allowed (E), default = 5.
rand.percent	(numeric) the percentage of data to be used for the bootstrapping process when calculating partial ROCs; default = 50.
iterations	(numeric) the number of times that the bootstrap is going to be repeated; default = 500.

Details

This function is used after the creation of final models.

Value

A list with two data.frame objects containing results from the evaluation process, and a folder, in the working directory, containing a csv file with the results from final model evaluation.

manubio13/ku.enm documentation built on Jan. 5, 2024, 5:55 a.m.