Workflow for RSV analyses on Nextstrain.org

Shared internal tooling for pathogen workflows. Used by our individual pathogen repos which produce Nextstrain builds.

Nextstrain build for avian influenza viruses

Nextstrain build for SARS-CoV-2

Pipeline components for real-time phylodynamic analysis

Nextstrain build for measles virus

the repository used to build West Nile Virus for nextstrain

Nextstrain build for tuberculosis

The Nextstrain command-line interface (CLI)—a program called nextstrain—which aims to provide a consistent way to run and visualize pathogen builds and access Nextstrain components like Augur and Auspice across computing environments such as Docker, Conda, and AWS Batch.

Umbrella documentation project for Nextstrain