runENMeval: Function to run ENMeval and MAXENT on the raster layers.

In btmartin721/ClineHelpR: Parses and Plots BGC and INTROGRESS Output

Function to run ENMeval and MAXENT on the raster layers.

Description

This function takes as input the object output from preparte_rasters() and the background partitioning method you would like to use (see ENMeval documentation). You can visualize how the partitioning methods will look by viewing the PDF output from partition_raster_bg. See ?partition_raster_bg for more info.

Usage

runENMeval(
  env.list,
  bg,
  partition.method,
  parallel = FALSE,
  np = 2,
  RMvalues = seq(0.5, 4, 0.5),
  feature.classes = c("L", "LQ", "H", "LQH", "LQHP", "LQHPT"),
  categoricals = NULL,
  algorithm = "maxent.jar"
)

Arguments

env.list	Object output from prepare_rasters() function
bg	Object with background points; generated from partition_raster_bg. If NULL, the background layer will be calculated for you.
partition.method	Method used for background point partitioning
parallel	If TRUE, ENMeval is run parallelized with np CPU cores
np	Number of parallel cores to use if parallel = TRUE
RMvalues	Vector of non-negative regularization multiplier values. Higher values impose a stronger penalty on model complexity
feature.classes	Character vector of feature classes to be used
categoricals	Vector indicating which (if any) of the input environmental layers are categorical.
algorithm	Character vector. Defaults to dismo's maxent.jar

Value

ENMeval object

Examples

eval.par <- runENMeval(env.list = envList,
                       bg = bg,
                       partition.method = "checkerboard1",
                       parallel = FALSE,
                       RMvalues = seq(0.5, 4, 0.5),
                       feature.classes = c("L",
                                           "LQ",
                                           "H",
                                           "LQH",
                                           "LQHP",
                                           "LQHPT")
                       categoricals = NULL,
                       algorithm = "maxent.jar")

btmartin721/ClineHelpR documentation built on Oct. 15, 2024, 5:05 a.m.