[ensembl-dev] VEP run on chrY
wm2 at ebi.ac.uk
Wed Jul 22 11:00:01 BST 2015
VEP shouldn't change the genotype data in your VCF file, can you provide a
sample of input and a command that recreates the issue?
On 22 July 2015 at 09:41, Yuan Chen <yuan at sanger.ac.uk> wrote:
> Hi Will,
> When I run VEP (79 version) on chrY which has genotype 0 or 1 in vcf file
> (i.e not 0/0), the VEP output file changed all 0 to '.', is this expected ?
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