Projects in Awesome Lists tagged with nextstrain
A curated list of projects in awesome lists tagged with nextstrain .
https://github.com/nextstrain/ncov
Nextstrain build for SARS-CoV-2
ncov nextstrain pathogen sars-cov-2
Last synced: 14 May 2025
https://github.com/hodcroftlab/covariants
Real-time updates and information about key SARS-CoV-2 variants, plus the scripts that generate this information.
covid-19 covid19 mutation mutation-distribution nextstrain sars-cov-2 sarscov2 tracking variants
Last synced: 14 Mar 2025
https://github.com/nextstrain/nextclade
Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement
clade clades coronavirus covid covid-19 covid19 dna influenza ncov neherlab next-generation-sequencing nextstrain research rna sars-cov-2 science sequences sequencing strain virus
Last synced: 15 Apr 2026
https://github.com/nextstrain/mpox
Nextstrain build for mpox virus
augur auspice bioinformatics genbank genomic-epidemiology metadata monkeypox mpox nextstrain pathogen phylogenetics pipeline virus-evolution
Last synced: 09 May 2025
https://github.com/nextstrain/seasonal-flu
Scripts. config, and snakefiles for seasonal-flu nextstrain builds
Last synced: 09 Apr 2025
https://github.com/nextstrain/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.
bash genbank gisaid ncov nextstrain pathogen python sars-cov-2
Last synced: 19 Aug 2025
https://github.com/nextstrain/avian-flu
Nextstrain build for avian influenza viruses
Last synced: 06 Oct 2025
https://github.com/nextstrain/ncov-clades-schema
Renders SVG schema of SARS-CoV-2 clade as defined by Nextstrain
clades nextstrain phylogenetics sars-cov-2
Last synced: 19 Aug 2025
https://github.com/nextstrain/forecasts-ncov
SARS-CoV-2 variant growth rates and frequency forecasts
bioinformatics forecasts nextstrain pango-lineages pathogen sars-cov-2 sars-cov-2-variants
Last synced: 19 Aug 2025
https://github.com/nextstrain/rsv
Workflow for RSV analyses on Nextstrain.org
Last synced: 19 Aug 2025
https://github.com/neherlab/nextclade_data_workflows
nextclade nextstrain phylogenetics snakemake virus-evolution
Last synced: 01 Aug 2025
https://github.com/neherlab/ba286
BA.2.86 project with Sigal lab
bioinformatics computational-biology genomic-epidemiology nextstrain phylogenetics sars-cov-2 sars-cov-2-variants snakemake treetime virus-evolution
Last synced: 09 Apr 2025
https://github.com/nextstrain/wnv
the repository used to build West Nile Virus for nextstrain
Last synced: 19 Aug 2025
https://github.com/neherlab/spike-only
Spike-only SARS-CoV-2 Nextstrain build
augur bioinformatics nextstrain nextstrain-ncov phylogenetics sars-cov-2 sars-cov-2-variants
Last synced: 09 Apr 2025
https://github.com/bccdc-phl/covflo
Nextflow pipeline for generation of BCCDC routine SARS-CoV-2 phylogenetic trees to be visualized with Auspice.
auspice evolutionary microbe nextflow nextstrain phylogenetics sars-cov-2 trees viral
Last synced: 02 Apr 2026
https://github.com/nextstrain/seasonal-cov
Nextstrain build for seasonal coronaviruses
Last synced: 10 Jun 2025
https://github.com/nextstrain/conda-base
Conda package build for nextstrain-base
Last synced: 19 Aug 2025