brentp / somalier

fast sample-swap and relatedness checks on BAMs/CRAMs/VCFs/GVCFs... "like damn that is one smart wine guy"

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unspecified parent

brentp opened this issue · comments

given a pedigree with a missing parent like:

fam	mom	0	0	2	2
fam	kid1	0	mom	2	2
fam	kid2	0	mom	2	2

somalier will give an expected relatedness of 0.25 to kid1 and kid2. It's probably more common that they will have the same father and therefore have an expected relatedness of 0.5.