StratoBayes: A Bayesian method for automated stratigraphic correlation and age modelling

Author(s): Kilian Eichenseer, Matthias Sinnesael, Martin R. Smith and Andrew R. Millard

This repository contains the data and code required to run the analyses and generate the results for the article “StratoBayes: A Bayesian method for automated stratigraphic correlation and age modelling” submitted to Geochronology in 2025.

To run StratoBayes, please visit stratobayes.github.io/software/ for installation instructions. To seamlessly use the R scripts in this repository, download the repo, unpack the Zip archive and navigate the working directory of your R session to that folder using setwd() or by opening the StratoBayesManuscript R project in RStudio.

To cite the paper: > Kilian Eichenseer, Matthias Sinnesael, Martin R. Smith and Andrew R. Millard. 2025. StratoBayes: A Bayesian method for automated stratigraphic correlation and age modelling. Submitted to Geochronology.

Binaries

Instead of using the installation instructions at stratobayes.github.io/software/, the package can also be installed from the binaries contained in the ./bin folder. This requires an R 4.4.x installation and is supported for Windows, macOS Intel and macOS Apple silicon.

Replace path/to/directory with the actual path to the StratoBayes-Manuscript folder on your computer, then run the following command from the R console within RStudio:

install.packages("StratoBayes", 
                 repos = c("file:///path/to/StratoBayes-Manuscript/", getOption("repos")), 
                 type = "binary", 
                 dependencies = TRUE)

Data

The data is organised in the folder “data” as follows:

  • ./data/simulated/ This folder contains simulated data used for the model demonstration and illustration.

  • ./data/cambrian/ This folder contains the early Cambrian δ13C, the radiometric dates, site partitionings and astrochronological data.

Figures

The “figures” folder contains the final composite figures of the manuscript, as well as two subfolders containing elements of the figures:

  • ./figures/conceptual-figure/ Elements of Fig. 1.

  • ./figures/illustration-Figure/ Elements of Fig. 2.

  • ./figures/cambrian-Figure/ Elements of Fig. 3–7 and the figures of Appendix B. ——-

R

R scripts for generating the results of the manuscript.

  • ./R/01-simulate-data.R This script simulates the data for the conceptual figure and for the model illustration.

  • ./R/02-analyse-simulated-data-1.R Generates the results for the conceptual figure.

  • ./R/03-analyse-simulated-data-2.R Generates the results for the model illustration.

  • ./R/04-analyse-Cambrian-data.R Analysis of the early Cambrian data.

  • ./R/05-results-for-text.R Compiles results for the text.

  • ./R/figures/ This folder contains the R scripts to generate the figures.

Results

The “results” folder stores the results generated by the analysis scripts, organised in the following subfolders:

  • ./results/model-illustration Results from analysing the simulated data. alignment-2-peaks.rds holds the results from the MCMC for the model illustration analysis.

  • ./results/cambrian/ Results from analysing the Cambrian data. cambrian-results.rds holds the results from the MCMC for the Cambrian analysis.

  • ./results/text-results/ Results saved for use in the manuscript text.