The frontline support team will be unavailable to answer questions until May27th 2019. We will be back soon after. Thank you for your patience and we apologize for any inconvenience!
Error : Duplicate allele added to VariantContext
I download GnomAD vcf files in GRCh38 (hg19 remap). I want to convert this vcf in a table so i try to use VariantsToTable.
But i have this error :
The provided VCF file is malformed at approximately line number 10609: Duplicate allele added to VariantContext: C
line 10609 :
10 3101451 rs4881080 C C,T,G 191085017.71 PASS AC=237624,66,1;AF=9.99663e-01,2.77656e-04,4.20691e-06
I agree C is in REF and ALT colum but we can use VariantsToTable without check the integrity of vcf files?