Alien macroinvertebrates


This repository contains the functionality to standardize the data of Boets et al. (2016) to both a Darwin Core checklist and Darwin Core occurrence dataset that can be harvested by GBIF. The repository also contains the code for a website to explore the occurrence data. It was developed for the TrIAS project.


Repo structure

The repository structure is based on Cookiecutter Data Science. Files and directories indicated with GENERATED should not be edited manually.

├──         : Description of this repository
├── LICENSE           : Repository license
├── .gitignore        : Files and directories to be ignored by git
├── data
│   ├── raw           : Source data, input for mapping script
│   └── processed     : Darwin Core output of mapping script GENERATED
├── docs              : Repository website GENERATED
├── specifications    : Data specifications for the Darwin Core files
└── src
    ├── dwc_checklist.Rmd  : Darwin Core mapping script for checklist dataset
    ├── dwc_occurrence.Rmd : Darwin Core mapping script for occurrence dataset
    └── src.Rproj          : RStudio project file


  1. Clone this repository to your computer
  2. Open the RStudio project file
  3. Open the dwc_checklist.Rmd or dwc_occurrence.Rmd R Markdown file in RStudio
  4. Install any required packages
  5. Click Run > Run All to generate the processed data
  6. Alternatively, click Build > Build website to generate the processed data and build the website in /docs


List of contributors


MIT License