Nextstrain's Projects
Nextstrain shared infrastructure
Shared internal tooling for pathogen data ingest. Used by our pathogen build repos.
Build and deploy Nextstrain
Nextstrain build for Lassa virus
Nextstrain build for measles virus
Nextstrain build for MERS-CoV
Tutorial to visualize MERS-CoV tree from BEAST in auspice
Nextstrain build for mpox virus
Nextstrain build for mumps virus
Narrative markdown files accessed via nextstrain.org/narratives/x
Nextstrain build for novel coronavirus SARS-CoV-2
Build configuration for Africa CDC SARS-CoV-2 builds
Renders SVG schema of SARS-CoV-2 clade as defined by Nextstrain
A pipeline that ingests SARS-CoV-2 (i.e. nCoV) data from GISAID and Genbank, transforms it, stores it on S3, and triggers Nextstrain nCoV rebuilds.
Simplified ncov (SARS-CoV-2) workflow.
Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement
Datasets for https://github.com/nextstrain/nextclade
Template repository to generate nextclade datasets
Demonstration of how to create public Nextstrain narratives
The Nextstrain website
interactive phylogenetic tree viewer
Information and scripts to automate the organization-wide GitHub project board.
Sync RTD project redirects from a YAML file
Testbed for Sphinx + RTD experiments