Quarto

About This Course

In the modern data science landscape, the ability to communicate findings clearly and reproducibly is just as critical as the analysis itself. Quarto represents the next generation of scientific publishing, providing a powerful framework to weave together narrative text, executable code, and high-quality output. This course, developed by the Core Facility Bioinformatics and Statistics at Helmholtz Munich, is designed to move you away from tedious "copy-paste" workflows and toward a professional, automated reporting system.

Throughout this module, you will gain hands-on experience building dynamic documents from scratch. We begin with the fundamentals of Markdown syntax and YAML configuration before diving into the integration of R code chunks. You will learn how to manage data dependencies, create publication-ready figures, and generate interactive tables that allow your audience to explore data directly within your report. We also cover essential "good practices" for file paths and project organization to ensure your work remains reproducible across different computing environments.

By the end of the course, you will be able to transform complex analyses into polished HTML reports, PDFs, or Word documents with a single click. Whether you are documenting your daily workflow for lab colleagues or preparing a supplementary report for a high-impact publication, Quarto will ensure your research is transparent, professional, and easy to share.