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fritzsedlazeck / SURVIVOR

Toolset for SV simulation, comparison and filtering

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Are the variants normalized?

Krannich479 opened this issue · comments

commented

Hi,
I was wondering if the simulated variants* are normalized according to the definition of bcftools, i.e. are they left-aligned and comply to the maximum parsimony notation?

*I particularly use SURVIVOR for SNVs/indels

commented

For future reference: no.

As of 19/05/2023 (latest commit ed1ca51) some indels are getting normalized by bcftools.