Hi, I have bunch of samples from cancer patients amplicon sequencing. We are trying to identify somatic mutations related to those.
I would like to perform check for sample swaps in these samples since we have typically more than one sample per patient. What comes into my mind is to produce VCF files, filter them such that it contains only dbSNP records with genotype calls 0/1 or 1/1 and cluster the results.
Is there some tool to do this or I have to do everything manually?