Nextstrain

ncov

Nextstrain build for novel coronavirus SARS-CoV-2

auspice

Web app for visualizing pathogen evolution

nextclade

Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement

nextstrain.org

The Nextstrain website

seasonal-flu

Scripts. config, and snakefiles for seasonal-flu nextstrain builds

mpox

Nextstrain build for mpox virus

ncov-ingest

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.

fauna

RethinkDB database to support real-time virus analysis

nextclade_data

Datasets for https://github.com/nextstrain/nextclade

auspice.us

avian-flu

Nextstrain build for avian influenza viruses

docker-base

Docker image build for nextstrain/base

.github

dengue

Nextstrain build for dengue virus

zika

Nextstrain build for Zika virus

forecasts-ncov

SARS-CoV-2 variant growth rates and frequency forecasts

rsv

Workflow for RSV analyses on Nextstrain.org

ebola

Nextstrain build for Ebola virus

flu_frequencies

Flu clade and mutation frequencies

pathogen-repo-guide

mumps

Nextstrain build for mumps virus

conda-base

Conda package build for nextstrain-base

ingest

Shared internal tooling for pathogen data ingest. Used by our pathogen build repos.

seasonal-cov

tb

Nextstrain build for tuberculosis

infra

Nextstrain shared infrastructure

lassa

Nextstrain build for Lassa virus

measles

Nextstrain build for measles virus

rabies

workflow-asset-summary