Andros-Spica/hpcModel: Human-Plant Coevolution model: source files, simulation interface, sensitivity analysis report and documentation

Contents related to the Human-Plant Coevolution model implemented in R.

This repository includes the source files (library) and documentation of the HPC model, the sensitive analysis report (Rmarkdown), and a user interface for running and visualising simulations (Shiny app).

The entire repository is the directory of an R Project that runs in RStudio. Download it to consult and use all files locally. Created and tested with R 3.6.2 and should be mostly compatible with later versions. There are no package dependency for the model code. To re-run all experiment analyses (both R and Rmd scripts), the following packages must be installed: ggplot2 (3.3.1), scales (1.1.1), reshape2 (1.4.4), ggpubr (0.4.0), randomForest (4.6.14), kableExtra (0.3.4), magick (2.7.2). To re-compile the html booklet the following packages are also needed: knitr (1.33), bookdown (0.22). The Shiny app was built with shiny (1.6.0).

Alternatively, explore the following online features:

Explore single simulation runs using the Shiny App hosted in ShinyApps.io: https://andros-spica.shinyapps.io/HPCShinyApp/

Consult the HTML version of the sensitivity analysis report: https://andros-spica.github.io/hpcModel

See our a presentation overviewing the model and its results, hosted in another repository: https://github.com/Andros-Spica/ENE-Angourakis-et-al-2019

Dedicated article:

Angourakis, A., Alcaina-Mateos, J., Madella, M., and Zurro, D. (to be anounced) Human-Plant Coevolution: a modelling framework for theory-building on the origin of agriculture.