Cheat sheets
The commands and file formats from the lessons, one page per tool
Each sheet collects what a lesson uses, grouped by task, and links back to the section that teaches it. Each sheet ends with the tool’s official cheat sheet, or with its official reference where the tool has no cheat sheet. To keep a sheet at hand, print it or save it as a PDF from your browser.
| Cheat sheet | Lessons | Official cheat sheet |
|---|---|---|
| Bash | Bash 101, every lesson | none; the GNU Bash manual |
| Project and data | 02, 03 | none; Cookiecutter usage guide |
| Git and GitHub | 04 | Git, GitHub |
| Pixi | 05, 05b | Conda; Pixi has a command reference |
| Conda and Mamba | 05b | Conda |
| Jupyter | 06 | none; JupyterLab and nbconvert guides |
| Quarto | 07 | Quarto (by Posit) |
| Markdown | Markdown | CommonMark |
| Docker | 08 | Docker |
| Apptainer | 08 | none; Apptainer quick start |
| Snakemake | 09 | none; command line and rules reference |
| Nextflow | 10 | none; command line and syntax reference |
| Documentation and sharing | 11, 12 | none; citation file guide, licenses, Zenodo |