Bundled documentation

All documentation must be bundled with the pipeline code in the main repository, within a directory called docs.

Documentation must only be hosted on the nf-core website and GitHub. Hosting the documentation at a second location (such as custom readthedocs website, or GitHub pages etc) is not allowed. This is to ensure that users of nf-core pipelines can always intuitively find the documentation for all nf-core pipelines in the same way.

Documentation must include at least the following files:

• README.md
• docs/usage.md
• docs/output.md

Additional pages (e.g. tutorials, FAQs) can be added and will be automatically rendered on the nf-core website pipeline page.