1. 1. The Styx Book
2. 2. Getting started
3. 1. 2.1. Runners
   2. 2.2. I/O: Where are my files?
   3. 2.3. Tips & best practices
   4. 2.4. Styx on HPC clusters
   5. 2.5. I found a bug
4. 3. Advanced concepts
5. 1. 3.1. Writing custom runners
6. 4. Contributing
7. 1. 4.1. Contributing to NiWrap
   2. 4.2. Contributing to the Styx compiler
   3. 4.3. Contributing to the Book
8. 5. Examples
9. 1. 5.1. Example: MRI anatomical preproc
   2. 5.2. Example: Generate mermaid graph
   3. 5.3. Example: Dynamic runners
10. 6. Boutiques Guide
11. 1. 6.1. Basic Structure
    2. 6.2. Subcommands
    3. 6.3. File Handling
    4. 6.4. Advanced Features
    5. 6.5. Troubleshooting
    6. 6.6. Examples