Slides for “From Raw Data to Finished Paper: Building a Reproducible Research Pipeline”, a session of the Doctoral Orientation Week at WHU - Otto Beisheim School of Management. The session makes the case for managing research data and code deliberately. A well-organized project lets one command reproduce every result, even years later on a new laptop. The closing chapter turns to AI coding agents, with one rule above all: the agent may write the code, it never does the research.
The slides are available as a PDF.
The deck is one Quarto file, presentation.qmd, which renders to presentation.pdf on the WHU beamer template. Many slides show a real companion repository, the research pipeline example, where raw data go in and one command rebuilds the analysis, the paper, and the slides.
The repository is available at github.com/victorvanpelt/reproducible_research_slidedeck.
reproducible_research_slidedeck/
├── presentation.qmd the deck's source; this is the file to edit
├── presentation.pdf the rendered slides
├── presentation.tex intermediate LaTeX (only present if the last render failed)
├── images/ figures and screenshots shown on the slides
├── materials/ WHU beamer template, fonts, bibliography, LaTeX support files
├── Makefile build tasks: `make` renders the deck
├── AGENTS.md rules for AI coding agents working in this repo
├── _config.yml tells GitHub Pages to skip the Quarto file
├── .gitignore keeps local agent configuration out of git
├── LICENSE MIT license
└── README.md this file
git clone https://github.com/victorvanpelt/reproducible_research_slidedeck.git
cd reproducible_research_slidedeck
make
make runs quarto render presentation.qmd, writes presentation.pdf, and deletes the intermediate .tex once the render succeeds; a failed render leaves the .tex in place for debugging. make clean deletes presentation.pdf and any leftover .tex. If Quarto is not on your PATH, point to it with make QUARTO=/path/to/quarto.
The deck uses date: today, so the title slide shows the render date. Re-render shortly before the talk.
quarto install tinytex).AGENTS.md states the rules AI coding agents must follow in this repository. Most agentic coding tools read it automatically. In short: edit presentation.qmd only, never touch the rendered PDF or the template by hand, verify by rerunning make, and leave all changes uncommitted for the maintainer to review.
Maintained by Victor van Pelt. Released under the MIT License: reuse and adapt freely, as long as the copyright and license notice stay with copies. Third-party files in materials/ (the media9 LaTeX package, the Helvetica Neue fonts) keep their own licenses.