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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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Private mutation from nextclade #226

Open MarieLataretu opened 2 years ago

MarieLataretu commented 2 years ago

Private mutation from the nextclade output can help to detect recombinants, mixed infections or contamination, see Twitter

We could add the following columns to the datatable: "privateNucMutations.reversionSubstitutions", "privateNucMutations.labeledSubstitutions", "privateNucMutations.unlabeledSubstitutions", "qc.privateMutations.status"

And maybe add also the qc.privateMutations.status in the html?

MarieLataretu commented 2 years ago

I actually have an other datatable extension request: Nextclade_pango from nextclade output (available from version 1.11)

If the clade is labeled as recombinant, one can looke this up easily