The bioinformatic pipelines within the CosmosID-HUB can be accessed via the Command Line Interface (CLI). Using the command line, you can seamlessly integrate CHAMP™, Kepler, and more into your automated workflows and operations while also leveraging our cloud infrastructure.

This guide will provide step-by-step instructions for running each of our workflows via the command line. You can find additional information on our CLI interface at https://github.com/CosmosID/cosmosid-cli/blob/master/README.md.

Install and Setup

Running the CLI

Example Commands: Running CHAMP