How does assigning RSID (dbsnp IDs) work when there are multiple variants at the same line? For example, if the genotype is 1/2, and of of these variants have a distinct RSID, would they both be assigned, separated by comma? And what about multi-sample VCFs, is the situation the same (e.g. 0/1 and 0/2)? Are there any limitations or recommendations on this?
Hello ognjen011 ,
the ID column doesn't differ between multiple ALT values. This is why you cannot definitly say to which of the multiple ALT values an ID belongs. As long as the ALT values are of the same length, there is a good chance that the ID belongs to both, as (most of the time) all variants that map to the same position gets the same rsID.