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replikation / poreCov

SARS-CoV-2 workflow for nanopore sequence data
https://case-group.github.io/
GNU General Public License v3.0
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Add new V5 ARTIC primer BED #238

Closed hoelzer closed 1 year ago

hoelzer commented 2 years ago

https://github.com/quick-lab/nCOV19/tree/main/v5.0

An adapted primer scheme for the most recent Omicron sublineages we can add.

MarieLataretu commented 2 years ago

fyi: version 5.1 is under development, since 5 has also coverage issues with current variants)

hoelzer commented 2 years ago

Ah great, good to know thx.

replikation commented 1 year ago

is there a bed file now out?

MarieLataretu commented 1 year ago

yes, I included V5 and V5.1 and will test it on V5 and V5.1 data this/next week

since a few days there is also V5.2: https://github.com/quick-lab/nCOV19/tree/main/v5.2.0

hoelzer commented 1 year ago

And there is now v5.3.2.:

https://github.com/quick-lab/SARS-CoV-2/tree/main/400/v5.3.2_400

which we will test soon and needs thus to be integrated. I looked briefly at the BED and I think it needs some formatting to work with poreCov.