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Depictio emplates

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/latest \
  --data-root /data/my_ampliseq_run

Available templates

16S · ITS · CO1 · 18S amplicon sequencing across Illumina, PacBio, and IonTorrent.

v2.16.0 Reviewed

Viral assembly and variant calling — SARS-CoV-2 and other genomes via the nf-core reference config.

v3.0.0 Reviewed

Status levels

Certified

Validated by the pipeline lead developer. Highest trust level.

Reviewed

Tested, CI passes, reviewed by the Depictio team or community.

Experimental

Shared as-is. Feedback and PRs welcome.

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
  • Recipe seeds — each recipe's output committed as a .tsv, so the bundled project can be explored, and re-ingested, without the pipeline run behind it (read by the CLI since v1.6.0)

See Template System Reference for the YAML format and resolution mechanics, Recipe seeds for how the seeds are picked up, and Recipes for how data transformations work.

Contributing a template

Want to add a template for another pipeline? The contributing guide covers the directory layout, recipe requirements, and review process.

Read the contributing guide