Welcome to Dockstore Documentation!


Our code lives on GitHub at dockstore/dockstore and dockstore/dockstore-ui2.

Dockstore is an open platform used by the GA4GH for sharing reproducible and interoperable tools, workflows, and services. For tools and workflows, we support Common Workflow Language (CWL), Workflow Description Language (WDL), Nextflow (NFL), and Galaxy.

If this is your first time learning about Dockstore, we recommend starting with the Getting Started Guide. This will introduce you to the core concepts of Dockstore, leaving you with a good understanding of the platform. However, if you are simply looking to launch tools and workflows, we recommend going straight to the End User Topics or our quickstart guide.

Getting Started

Launching tools and workflows from Dockstore

Dockstore partners with several compute platforms, allowing you to export workflows into these platforms with the click of a button. We also provide a CLI to run tools and workflows locally. Click on the links below for more information.

Cloud Partners

go to launch with AnVIL page go to launch with Cavatica page go to launch with Cancer Genome Cloud (CGC) page go to launch with DNA Nexus page go to launch with Galaxy page go to launch with Nextflow Tower page go to launch with Terra page

In addition to the above cloud partners, you can also launch workflows with BioData Catalyst or the Dockstore CLI.

Launching notebooks from Dockstore

Dockstore supports launching notebooks into several environments with the click of a button. Click on the links below for more information.

Notebook Environments

go to launch with Google Colab page go to launch with GitHub Codespaces page go to launch with MyBinder page

Videos (tutorials & presentations)

Best practices guidelines

Advanced developer topics

Topics for advanced users who have already completed our getting started guide.

Note that not all features are available in all workflow languages. It can be worthwhile looking at Language Support to see what features are available to you.

In Affiliation with

collaboratory       oicr       ga4gh       ucsc

Workflow Languages

cwl       wdl       nextflow       galaxy

Works With

sevenbridges       terra