Using a metadata table in the Flu build?

Help and Getting Started
1

Hello,
Is it possible to input the path to a metadata table in the Snakefile instead of providing metadata in the fasta header? I find it very difficult to transfer location data to the fasta header, since there’s nio option for that when downloading sequences from GISAID.

Thank you,
Leonardo

2

Hi @leocaserta,

If you are using data from GISAID, you can try following the Quickstart with GISAID data. This expects the separate metadata and FASTA files downloaded from GISAID.

Best,
Jover

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