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Templates

Templates are pre-packaged project configurations that set up a complete bioinformatics analysis project — dashboards included — with a single command.

depictio-cli run \
  --template nf-core/ampliseq/2.16.0 \
  --data-root /data/my_ampliseq_run

That's it. Depictio resolves your data directory, runs all data transformations, and imports ready-to-use dashboards automatically.

How templates work

A template bundles:

  • Project configuration — workflows, data collections, and cross-DC links with {VAR_NAME} placeholders
  • Recipes — Python transforms that convert raw pipeline outputs into dashboard-ready tables
  • Dashboard YAML — imported automatically on first run, with template variable substitution
  • Cross-DC links — enable interactive filtering across data collections

See Template System Reference for the YAML format and resolution mechanics, and Recipes for how data transformations work.

Status levels

Each template carries a status reflecting its review level.

Certified — Validated by the pipeline lead developer. Highest trust.

Reviewed — Tested, CI passes, reviewed by Depictio team or community.

Experimental — Shared as-is. Feedback and PRs welcome.

Available templates

Contributing a template

Want to add a template for another pipeline? See the Contributing Templates guide for the directory layout, recipe requirements, and review process.