Description

specify the relative abundance of each known haplotype

Input

Name
Description
Pattern

0 ()

1 ()

2 ()

barcodes (file)

File containing lineage defining barcodes

*barcodes.csv

lineages_meta (file)

Optional file containing lineage metadata that correspond to barcodes

*lineages.json

lineages_topology (file)

Optional file containing lineage topology information that correspond to barcodes

*lineages.yml

Output

Name
Description
Pattern

0 ()

0 ()

Tools

freyja Documentation

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

https://github.com/andersen-lab/Freyjadoi: 10.1038/s41586-022-05049-6License: BSD-2-Clause
Authors