SDMtune: plotCor – R documentation

Become an expert in R — Interactive courses, Cheat Sheets, certificates and more!

plotCor

Plot Correlation

Description

Plot a correlation matrix heat map with the value of the correlation coefficients according with the given method. If cor_th is passed then it prints only the coefficients that are higher or lower than the given threshold.

Usage

plotCor(bg, method = "spearman", cor_th = NULL)

Arguments

`bg`	SWD object used to compute the correlation matrix.
`method`	character. The method used to compute the correlation matrix, default is "spearman".
`cor_th`	numeric. If provided it prints only the coefficients that are higher or lower than the given threshold, default is `NULL`.

Value

A ggplot object.

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 <- raster::stack(files)

# Prepare background locations
bg_coords <- dismo::randomPoints(predictors, 10000)

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

# Plot heat map
plotCor(bg, method = "spearman")

# Plot heat map showing only values higher than given threshold
plotCor(bg, method = "spearman", cor_th = 0.8)

SDMtune

Species Distribution Model Selection

v1.1.4

GPL-3

Authors

Sergio Vignali [aut, cre] (<https://orcid.org/0000-0002-3390-5442>), Arnaud Barras [aut] (<https://orcid.org/0000-0003-0850-6965>), Veronika Braunisch [aut] (<https://orcid.org/0000-0001-7035-4662>), Conservation Biology - University of Bern [fnd]

Initial release