Open bartcharbon opened 3 years ago
Ok I will create a test case to replicate the situation
@moonso we have been running into this issue a couple of times. are you still planning to look into this issue?
Hi, sorry for taking so long. I will try to find time and look into this as soon as possible. Get back when there is a time estimate
No problem. I'm not proficient in Python (yet), but if there is anything I can do to help please let me know :)
We have a probably rather rare situation: After quality checks we end up with two variant in one gene:
This is possibly a comp_het, however it is missed by Genmod.
I changed the missing parent GT's in a testfile to 0/0 to confirm it works as expected in that case, and indeed: Genmod then marks the variants a compounds.