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ENH: Allow use of nextalign in augur translate

Open corneliusroemer opened this issue 1 year ago • 0 comments

Context

It'd be good if augur translate could interface with nextalign.

We have an explicit_translation.py script that does the job, but it'd be nice to integrate into translate.

The script can be found here for example: https://github.com/neherlab/ncov-simple/blob/master/scripts/explicit_translation.py

Right now augur translate asks for ancestrally reconstructed node data for internal nodes. The explicit translation script starts with the translations and infers internal nodes.

corneliusroemer avatar Sep 20 '22 20:09 corneliusroemer