trainValTest: Train, Validation and Test datasets

In SDMtune: Species Distribution Model Selection

Train, Validation and Test datasets

Description

Split a dataset randomly in training and testing datasets or training, validation and testing datasets.

Usage

trainValTest(x, test, val = 0, only_presence = FALSE, seed = NULL)

Arguments

x	SWD object containing the data that have to be split in training, validation and testing datasets.
test	numeric. The percentage of data withhold for testing.
val	numeric. The percentage of data withhold for validation, default is 0.
only_presence	logical. If TRUE the split is done only for the presence locations and all the background locations are included in each partition, used manly for presence-only methods, default is FALSE.
seed	numeric. The value used to set the seed in order to have consistent results, default is NULL.

Details

When only_presence = FALSE, the proportion of presence and absence is preserved.

Value

A list with the training, validation and testing or training and testing SWD objects accordingly.

Author(s)

Sergio Vignali

Examples

# Acquire environmental variables
files <- list.files(path = file.path(system.file(package = "dismo"), "ex"),
                    pattern = "grd",
                    full.names = TRUE)

predictors <- terra::rast(files)

# Prepare presence and background locations
p_coords <- virtualSp$presence
bg_coords <- virtualSp$background

# Create SWD object
data <- prepareSWD(species = "Virtual species",
                   p = p_coords,
                   a = bg_coords,
                   env = predictors,
                   categorical = "biome")

# Split presence locations in training (80%) and testing (20%) datasets
# and splitting only the presence locations
datasets <- trainValTest(data,
                         test = 0.2,
                         only_presence = TRUE)
train <- datasets[[1]]
test <- datasets[[2]]

# Split presence locations in training (60%), validation (20%) and testing
# (20%) datasets and splitting the presence and the absence locations
datasets <- trainValTest(data,
                         val = 0.2,
                         test = 0.2)
train <- datasets[[1]]
val <- datasets[[2]]
test <- datasets[[3]]

SDMtune documentation built on July 9, 2023, 6:03 p.m.