Template repository for standardizing thematic species checklist data to Darwin Core using R
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Checklist recipe

👩🏻‍🍳 This is a template repository for standardizing thematic species checklist data to Darwin Core using R. As a result, the rest of the README is a template as well. To use this repository for your own checklist data, read the recipe. Happy cooking!


This repository contains the functionality to standardize the data of to a Darwin Core checklist that can be harvested by GBIF.


source data → Darwin Core mapping script → generated Darwin Core files

Published dataset

Repo structure

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

├── README.md              : Description of this repository
├── LICENSE                : Repository license
├── checklist-recipe.Rproj : RStudio project file
├── .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
└── src
    ├── dwc_mapping.Rmd    : Darwin Core mapping script, core functionality of this repository
    ├── _site.yml          : Settings to build website in docs/
    └── index.Rmd          : Template for website homepage


  1. Clone this repository to your computer
  2. Open the RStudio project file
  3. Open the dwc_mapping.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/ (advanced)


List of contributors


MIT License for the code and documentation in this repository. The included data is released under another license.