Implement stable reporting of AA insertions, possibly snpEff

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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Closed RaverJay closed 2 years ago

RaverJay commented 2 years ago

Continued from #184

If Nextclade implements aaInsertions as an output column we can just use that

RaverJay commented 2 years ago

Nextclade added aaInsertions to output (https://github.com/nextstrain/nextclade/pull/692) I just need to integrate it

RaverJay commented 2 years ago

@replikation please build a new nextclade container so I can actually test :D

RaverJay commented 2 years ago

nvm there is no new release yet, I'll put up the PR anyway, it should work

hoelzer commented 2 years ago

Thx, yes best we wait until official release and bioconda recipe

RaverJay commented 2 years ago

Implemented in #198