- Introduction
- Getting Started
- 1. Installation & First Steps
- 2. Coming from R or Python
- Language Fundamentals
- 3. Bio Literals & Sequences
- 4. Variables, Types & Records
- 5. Collections & Tables
- 6. Pipes & Transforms
- 7. Functions & Closures
- 8. Control Flow
- 9. Error Handling
- Working with Biology
- 10. File I/O
- 11. Genomic Intervals & Variants
- Building Workflows
- 12. Pipelines
- 13. nf-core Integration
- 14. BioContainers
- 15. Galaxy ToolShed & Workflow Parsing
- 16. Statistics & Linear Algebra
- 17. Omics Packages
- 18. Bio APIs
- 19. Streams & Scale
- 20. SQLite & Notifications
- 21. Knowledge Graphs
- 22. PDB & Enrichment
- Extending BioLang
- 23. Literate Notebooks
- 24. Plugins & Extending
- 25. Packages, Migration & CLI Tooling
- Performance
- 26. Benchmarks & Correctness
- Appendix
- 27. Builtin Reference
- 28. Operator Reference