populationgenomics / talos

Rare Disease variant reanalysis tool
MIT License
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Trust SV qualities #450

Closed MattWellie closed 1 week ago

MattWellie commented 1 week ago

Fixes

Proposed Changes

cassimons commented 1 week ago

Can/should/do we just do variant-level GQ filtering on SVs? (default > 20) ?

MattWellie commented 1 week ago

Can/should/do we just do variant-level GQ filtering on SVs? (default > 20) ?

yes, I think so :D I'll do some poking to see if the site QUAL is intelligent, or taken from the first VCF in the merge. I'll get this in for now so we can see whether a completely unfiltered approach is viable