Open yueyaog opened 9 months ago
Hi @yueyaog. That's clearly a bug--can you provide me the initial VCF entry and the reference it's aligned to?
Sure. I didn't generate this SVWIDEN output myself. I got a copy of it from Justin Zook from NIST. I will send you a separate email with details.
Hi @nhansen,
I am going through a SVWIDEN output of HG002 VCF. I have noticed that there are some variants that were annotated REPTYPE=CONTRAC has longer ALT than REF. I expect CONTRAC records should have shorter ALT length than REF length because CONTRAC is a type of DEL. I have attached an instance below.
Do you have any explanations for this?