Supplementary code for The biodiversity impact of the Mediterranean salt giant
Project webpage: REMARE project
Niklas Hohmann (creator and maintainer of repository)
Utrecht University
email: n.h.hohmann [at] uu.nl
Web page: www.uu.nl/staff/NHohmann
ORCID: 0000-0003-1559-1838
Konstantina Agiadi (principal investigator)
University of Vienna
email: konstantina.agiadi [at] univie.ac.at
Web page: sites.google.com/view/kagiadi
ORCID: 0000-0001-8073-559X
Base R (version >= 4) and the RStudio IDE.
In the RStudio IDE, open the file messinian_biol_impact.Rproj. This opens the RProject of the same name, and installs the renv
package (if not already installed). Then, run
renv::restore()
in the console to install all dependencies required for the analysis. Next, run
source("code/download_data.R)
do download the database from Zenodo. Then, run
source("code/analysis.R)
to run the analysis and produce the figures. This will generate all figures in the figs/ folder, and generate the variables sr_change_whole
, sr_change_reg
, sr_change_time
, and eco_ind_median
in the workspace.
- code : folder for R scripts
- analysis.R : R script for main analysis
- download_data.R : script to download raw data from Zenodo
- helper_functions.R : utility functions for analysis
- data : folder for raw data. Initially empty, will be filled with data from Zenodo once download_data.R is run
- figs : folder for figures. Initially empty, will be filled with figures ofter analysis.R is run
- renv : folder for
renv
package - .Rprofile : R session settings
- .gitignore : untracked files
- LICENSE : Apache 2.0 license text
- README.md : README file with instructions for reproducibility
- messinian_biol_impact.Rproj : RProject file
- renv.lock : lock file for
renv
package
Apache 2.0, see LICENSE file for full text.
This work was supported by the Austrian Science Fund (FWF) project “Late Miocene Mediterranean Marine Ecosystem Crisis” (2022–2026), Project no. V 986, DOI 10.55776/V986 (PI: K.Agiadi).