NMDC Workflows

General Guidelines

NMDC aims to integrate existing open-source bioinformatics tools into standardized workflows for processing raw multi-omics data to produce interoperable and reusable annotated data products. Any commercial software are optional alternatives and not required.

Execution Environment

Two common ways to install and run the NMDC workflows:

• Native installation

• Containers

The NMDC workflows have been written in WDL and require a WDL-capable Workflow Execution Tool (i.e., Cromwell). To ease the native installation, Docker images have been created for the third-party tools for all of the workflows as well. The workflows use the corresponding Docker images to run the required third-party tools. Databases must be downloaded and installed for most of the workflows.