Ecological niche modeling in R

ENMs in R hands-on workshop

• 1st installment: 28 Feb 2024 @ Lab. of Animal Behaviour and Conservation, Nanjing Forestry University, China
• 2nd installment: 13 Jun 2024 @ Yanbian University, China
• 3rd installment: 1 July 2024 @ Laboratory of Herpetology, Kangwon National University, South Korea

Software and package dependencies

• R (version 4.2.2)
• SDMtune (version 1.3.1)
• ENMwrap (version 1.0.0)
• ENMeval (version 2.0.4)
• ecospat (version 4.0.0)
• megaSDM (version 2.0.0)
• humboldt (version 1.0.0.420121)
• dismo (version 1.3.14)
• plyr (version 1.8.8)
• dplyr (version 1.1.0)
• readr (version 2.1.4)
• MASS (version 7.3.58.2)
• raster (version 3.6.14)
• terra (version 1.7.65)
• sf (version 1.0.14)
• ggplot2 (version 3.4.1)
• rasterVis (version 0.51.5)
• pals (version 1.8)
• caret (version 6.0.93)

Software and package installation

• R installation: https://cran.r-project.org/bin/windows/base/

• RStudio installation: https://posit.co/download/rstudio-desktop/

• Installation of packages hosted on CRAN

pkg.list <- c('SDMtune', 'ENMeval', 'dismo', 'plyr', 'dplyr', 'readr', 'MASS', 'raster', 'terra', 'ggplot2', 'rasterVis', 'sf', 'pals', 'caret')

install.packages(pkg.list) 

• Installation of packages not hosted on CRAN

## install the devtools package to enable the installation of packages from non-CRAN repositories
install.packages('devtools')

## install megaSDM
devtools::install_github("brshipley/megaSDM", build_vignettes = TRUE)

## install humboldt
devtools::install_github("jasonleebrown/humboldt")

## install ENMwrap
devtools::install_github("yucheols/ENMwrap")

How to download codes and data

1) Click the green button named "Code" on the top right part of this repository

2) Click "Download ZIP" to download all the codes and associated data as a .zip file