prepareSWD: Prepare an SWD object

Description Usage Arguments Details Value Author(s) Examples

View source: R/prepareSWD.R

Description

Given the coordinates, the species' name and the environmental variables, the function creates an SWD object (sample with data).

Usage

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prepareSWD(species, env, p = NULL, a = NULL, categorical = NULL)

Arguments

species

character. The name of the species.

env

stack containing the environmental variables used to extract the values at coordinate locations.

p

data.frame. The coordinates of the presence locations.

a

data.frame. The coordinates of the absence/background locations.

categorical

vector indicating which of the environmental variable are categorical, default is NULL.

Details

The SWD object is created in a way that the presence locations are always before than the absence/background locations.

Value

An SWD object.

Author(s)

Sergio Vignali

Examples

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

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

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

Example output

   _____  ____   __  ___ __
  / ___/ / __ \ /  |/  // /_ __  __ ____   ___
  \__ \ / / / // /|_/ // __// / / // __ \ / _ \
 ___/ // /_/ // /  / // /_ / /_/ // / / //  __/
/____//_____//_/  /_/ \__/ \__,_//_/ /_/ \___/  version 1.1.3

To cite this package in publications type: citation("SDMtune").
Extracting predictor information for presence locations...
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Extracting predictor information for absence/background locations...
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Object of class SWD 

Species: Virtual species 
Presence locations: 400 
Absence locations: 5000 

Variables:
---------
Continuous: bio1 bio12 bio16 bio17 bio5 bio6 bio7 bio8 
Categorical: biome 

SDMtune documentation built on July 17, 2021, 9:06 a.m.