Adagio

Adagio lets you build and run bioinformatics pipelines through a visual interface and a portable CLI.

The same exported .adg pipeline file can be:

• built and edited in the browser
• inspected and run from the command line
• submitted to the shared pipeline catalog

Start here

• New to Adagio: read Introduction.
• Want to build a pipeline: start with Quick Start and then Connections and Semantic Types.
• Want to run a downloaded or catalog pipeline: read Running with the CLI, Pipeline Channels, Runtime Configuration, and Cache Behavior.
• Want to register a plugin or submit a pipeline: read Registering and Submitting a Plugin and Submitting a Pipeline.

Common workflows

• Build in the browser, then export for local execution: Quick Start -> Managing Pipelines -> Running with the CLI
• Understand why a connection is or is not allowed: Working with Nodes -> Connections and Semantic Types
• Run a pipeline with custom Docker or Apptainer images: Running with the CLI -> Pipeline Channels -> Runtime Configuration -> Cache Behavior
• Make a plugin available in Adagio and iterate on a local workflow: Plugin Development Resources -> Registering and Submitting a Plugin -> Developer Workflow