feat!: make annotations for candidate variant filtering configurable

snakemake-workflows / dna-seq-varlociraptor

A Snakemake workflow for calling small and structural variants under any kind of scenario (tumor/normal, tumor/normal/relapse, germline, pedigree, populations) via the unified statistical model of Varlociraptor.

MIT License

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feat!: make annotations for candidate variant filtering configurable #251

Closed dlaehnemann closed 11 months ago

dlaehnemann commented 12 months ago

We have a use case, where we want to use gnomAD population frequencies of variants to filter out common variants BEFORE running varlociraptor. For this, we need to be able to customize the vep flags (and potentially plugins in the future) used for annotating candidate calls before candidate call filtering. This PR introduces this.

dlaehnemann commented 12 months ago

Something is wrong with this PR. The latest (fourth) commit is pushed online to the branch, but doesn't display here.