Open northwestwitch opened 1 week ago
In case the simple id is the same, they should match: https://github.com/Clinical-Genomics/scout/blob/868323944055f899b2c5b6542c2f8da5cbbb18c0/scout/adapter/mongo/variant.py#L581
If we truly intended this as a feature, there would be a caveat for SVs having poor genotyping from at least the RD side. We do check if the matching variant was really from an affected: https://github.com/Clinical-Genomics/scout/blob/868323944055f899b2c5b6542c2f8da5cbbb18c0/scout/adapter/mongo/variant.py#L475-L504 In general the rule of matching gt is probably not fantastic for the somatic pipeline cases?
n case the simple id is the same, they should match:
Let's check if the cases from that ticket if the use of causative matching would have suggested the variant among the SVs. We could use it as an argument in general when these things happen
Like a SNV that is causative, is searched among the SVs of the case? - I can look in the code by myself as well, but I drop the question here so we remember to make sure