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broadinstitute / variant-curation-portal

Web application for curating loss of function variants
https://lof.curation.broadinstitute.org
MIT License
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Update source of liftover in variant script #263

Closed rileyhgrant closed 6 months ago

rileyhgrant commented 7 months ago

Use hail native helper functions to liftover GRCh38 varaints to GRCh37, rather than relying on the gnomad variant liftover hailtables.

rileyhgrant commented 6 months ago

@phildarnowsky-broad requesting review at your convenience. No real rush on this one.

This one has 3 commits, each smol. The one with real substance is the second one that actually updates the source of the liftover. I had been doing a funky thing using the gnomad liftover tables, but turns out hail has a convenience function for doing liftover for an arbitrary coordinate that makes things much simpler and faster.