[](https://github.com/jmcascalheira/MidPalSet) [](https://cran.r-project.org/) [](http://choosealicense.com/licenses/mit/) [](http://orcid.org/0000-0003-0321-8892) ## Research compendium for the paper "The spatial patterning of Middle Paleolithic human settlement in westernmost Iberia" ### Compendium DOI <https://doi.org/10.17605/OSF.IO/VW4TD> The files at the URL above will generate the results as found in the publication. The files hosted at https://github.com/jmcascalheira/MidPalSet are the development versions and may have changed since the report was published ### Author of this repository João Cascalheira (<jmcascalheira@ualg.pt>) ### Overview of the repository This repository is our research compendium for our analysis. The compendium contains all data, code, and text associated with the publication. The Rmd files in the `analysis/paper/` directory contain details of how all the analyses reported in the paper were conducted, as well as instructions on how to rerun the analysis to reproduce the results. The `data/` directory in the `analysis/` directory contains all the raw data. The analysis/ directory contains: * all the data files (in CSV format, in the `data/` directory) * the manuscript as submitted (in MS Word format) * all the figures that are included in the paper (in the `figures/` directory) ### The R package You can download the compendium as a zip from from this URL: <https://github.com/jmcascalheira/MidPalSet/archive/master.zip> This repository is organized as an R package using rrtools by Ben Marwick, which can be installed from github with: ```{r gh-installation, eval = FALSE} # install.packages("devtools") devtools::install_github("benmarwick/rrtools") ``` There are no actual R functions in this package - all the R code is in the Rmd file. We simply used the R package structure to help manage dependencies, to take advantage of continuous integration for automated code testing, and so I didn't have to think too much about how to organise the files. To download the package source as you see it on GitHub, for offline browsing, use this line at the shell prompt (assuming you have Git installed on your computer): ```{r eval=FALSE} git clone https://github.com/jmcascalheira/MidPalSet.git ``` Once the download is complete, open the `MidPalSet.Rproj` in RStudio to begin working with the package and compendium files. The package has a number of dependencies on other R packages, and programs outside of R. Installing these can be time-consuming and complicated, so we've included a packrat directory, which contains the source code for all the packages we depend on. If all works well, these will be installed on your computer when you open `midpaldet.Rproj` in RStudio. ### Licenses **Text and figures :** [CC-BY-4.0](http://creativecommons.org/licenses/by/4.0/) **Code :** MIT http://opensource.org/licenses/MIT year: 2018, copyright holder: João Cascalheira **Data :** [CC-0](http://creativecommons.org/publicdomain/zero/1.0/) attribution requested in reuse ### Dependencies: See the colophon section of the docx file in `analysis/paper` for a full list of the packages that this project depends on. ### Contact: João Cascalheira, Researcher ICArEHB University of Algarve, Campus de Gambelas 8005-139 Faro PORTUGAL email: jmcascalheira@ualg.pt website: http://www.joaocascalheira.com