Data preparation for StratPal workshop and package (Hohmann et al. 2024, 2025). Emulates scenario A of Hohmann et al. (2024) using CarboKitten.jl (Hidding et al. 2025).
Niklas Hohmann
Utrecht University
email: n.h.hohmann [at] uu.nl
Web page: www.uu.nl/staff/NHohmann
ORCID: 0000-0003-1559-1838
Julia >= 1.10, R >= 4.0
To simulate the carbonate platform, do in Julia package mode (press ] in the Julia REPL)
activate .
instantiateThis will activate the project and download & precompile all required Julia packages. Then run
include("code/sim_platform.jl")to run simulate the carbonate platform. This will generate the platform data in data/, including outputs of age-depth models, water depth, and stratigraphic columns as .csv file. Then you can genrate the figures using
include("code/vis_platform.jl")which will generate all figures in figs/.
To process the data in R and save it as .rda file (as it is provided in the StratPal package), run the file code/data_proc_jl.R in R, e.g., via
Rscript code/data_proc_jl.R
in your console.
Copyright 2023-2025 Netherlands eScience Center and Utrecht University
Apache 2.0 License, see LICENSE file for full license text.
- Hidding, J., Jarochowska, E., Hohmann, N., Liu, X., Burgess, P., and Spreeuw, H.: CarboKitten.jl – an open source toolkit for carbonate stratigraphic modeling, EGUsphere [preprint]. https://doi.org/10.5194/egusphere-2025-4561, 2025.
- Hohmann, N., and Jarochowska, E: StratPal: An R package for creating stratigraphic paleobiology modelling pipelines. Methods in Ecology and Evolution, 16, 678–686. https://doi.org/10.1111/2041-210X.14507, 2025.
- Hohmann, N.: StratPal: R package for stratigraphic paleobiology modeling pipelines (v0.7.0). Zenodo. https://doi.org/10.5281/zenodo.12790994, 2025.
- Hohmann, N., Koelewijn, J.R., Burgess, P., and Jarochowska, E.: Identification of the mode of evolution in incomplete carbonate successions. BMC Ecol Evo 24, 113. https://doi.org/10.1186/s12862-024-02287-2, 2025.
Funded by the European Union (ERC, MindTheGap, StG project no 101041077). Views and opinions expressed are however those of the author(s) only and do not necessarily reflect those of the European Union or the European Research Council. Neither the European Union nor the granting authority can be held responsible for them.
