This work is licensed under a Creative Commons Attribution-NonCommercial 4.0 International License.
This is a course on how to use Quarto, with the target audience being for scientists. This was first developed as a short workshop on rmarkdown, as the book "rmarkdown for scientists". The general structure will be the same, and it will grow and change over time as a living book.
This online book covers more content than the workshop. Here's an example structure of a 3.5 hour course.
time | topic |
---|---|
1:30-1:40 | Get started with your own Quarto document |
1:40-2:00 | Workflow when using Quarto documents and projects |
2:00-2:20 | Exporting Quarto documents to PDF, HTML, and Microsoft Word |
2:30-3:00 | BREAK |
3:00-3:30 | Managing captions, figures, tables |
3:30-3:45 | Managing equations and bibliographies |
3:45-4:15 | How to debug and handle common errors |
3:45-5:00 | Free time for discussion around aother Quarto formats: websites, blogs, slides, and more! |
After completing this course, you will know how to:
We may, depending on time, also cover the following areas:
See the installation chapter for details on software to be installed.
Working materials will be made available at github.com/njtierney/qmd4sci-materials.
This book aims to teach the following:
For a scientific report to be completely credible, it must be reproducible. The full computational environment used to derive the results, including the data and code used for statistical analysis should be available for others to reproduce.
Quarto is a tool that allows you integrate your code, text and figures in a single file in order to make high quality, reproducible reports. A paper published with an included Quarto file and data sets can (in principle) be reproduced by anyone with a computer.
Tentatively, there will also be a new part to this book, which discusses how to use Quarto in a targets pipeline. This is now my preferred way to work when starting new projects, and it draws heavily from Miles McBain's ergonomic workflow packages, tflow, fnmate, capsule, most of which are demonstrated in his blog post, "Benefits of a function-based diet (The {drake} post)".
This work is licensed under a Creative Commons Attribution-NonCommercial 4.0 International License.