SACGF / SACGF/variantgrid

Excluding somatic variants in gene search analysis

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#685 1 comment 0 reactions 0 assignees View on GitHub
enhancement
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Python
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Description

Hi guys,

I get regular requests from collaborators to look if we have seen germline variants in a specific gene within our AFHCS or GA cohorts. I've created a 'Gene Search' analysis to have a quick look in our dataset: https://variantgrid.com/analysis/2466/

I always run into the issue that the rare variants are called in a somatic dataset (like the genomics collaboration one), as artefacts in 1 or 2 of the reads.

Would it be possible to exclude certain (somatic) projects/.vcfs in a gene search analysis?

Thanks!
Peer

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