SACGF / SACGF/variantgrid

gnomAD AF filters - when people use sub populations

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#595 2 comments 0 reactions 0 assignees View on GitHub
Analysis optimisation
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Python
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Description

Research use any populations other than Finnish/Ashkenazi Jewish - which means we can't use our gnomAD cohort genotype filters and get the speed boost.

We could make our gnomad AF division based on ANY of the sub populations, not sure how much bigger that would make it.

It doesn't appear to make much difference, maybe stops a few extras going in but they are almost always filtered out by eg damaging filters below - maybe we could get them to switch to using AF or popmax?

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