AD 0,0 BUT DP >0
Hi I would have a question regarding the GATK output applying all steps and doing a multiple sample calling.
There are some entries which apparently have a AD: 0,0 for the REF and ALT allele but have a DP value greater than 0.
How can this be?
Even the GT field is sometimes in this cases set to 0/0 or 1/1 is this arbitrary?
Thank you in anticipation for answering the question
just found this entry