Contributing
- Adding a new pipeline
- Code editor plugins
- Code formatting
- Contributing to an existing pipeline
- DSL2 Modules
- DSL2 Subworkflows
- Developer Tutorials
- Gitpod
- Graphic design guidelines
- Guidelines
- Pipeline Release Review Guidelines
- Release checklist
- Special content elements
- Synchronisation
- Test data guidelines
- Training material guide
Pipelines can accept as many input files as you like, but it should be possible to run with as few as possible.
For example, pipelines should auto-generate missing reference files, where possible. So given a reference genome Fasta file a pipeline would build the reference index files. The pipeline should also be able to optionally accept the reference index files in this case, if available.