Description

downloads new versions of the curated SARS-CoV-2 lineage file and barcodes

Input

Name (Type)
Description
Pattern

db_name (string)

The name of the database directory

Output

Name (Type)
Description
Pattern

barcodes (file)

File containing lineage defining barcodes

*barcodes.csv

lineages_topology (file)

File containing the lineage topology

*lineages.yml

lineages_meta (file)

File containing lineage metadata that correspond to barcodes

*lineages.json

versions (file)

File containing software versions

versions.yml
author
Github user Joon-Klaps
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Tools

freyja
BSD-2-Clause

Freyja recovers relative lineage abundances from mixed SARS-CoV-2 samples and provides functionality to analyze lineage dynamics.

github.com/andersen-lab/Freyja github.com/andersen-lab/Freyja/wiki https://github.com/andersen-lab/Freyja 10.1038/s41586-022-05049-6