Nextstrain build for novel coronavirus SARS-CoV-2
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Updated
Jun 3, 2024 - Python
Nextstrain build for novel coronavirus SARS-CoV-2
Real-time updates and information about key SARS-CoV-2 variants, plus the scripts that generate this information.
Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement
Scripts. config, and snakefiles for seasonal-flu nextstrain builds
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.
Nextstrain build for mpox virus
Renders SVG schema of SARS-CoV-2 clade as defined by Nextstrain
Nextflow pipeline for generation of phylogenetic trees to be visualized in Auspice.
VariantHunter is a tool for fast detection of emerging SARS-CoV-2 variants. It's an highly flexible and user friendly application for the systematic monitoring of the evolution of SARS-CoV-2 both at global and regional level.
Nextflow pipeline for generation of BCCDC routine SARS-CoV-2 phylogenetic trees to be visualized with Auspice.
SARS-CoV-2 variant growth rates and frequency forecasts
BA.2.86 project with Sigal lab
Parallelization of Nextstrain builds and parameter testing using Nextflow
gentoo portage overlay for nextstrain.org/ncov building.
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