[ensembl-dev] filter_common filter not working
wm2 at ebi.ac.uk
Fri Aug 23 10:31:22 BST 2013
Thanks Duarte, the VEP was being caught out by having multiple co-located
This is fixed on CVS now.
On 22 August 2013 16:13, Duarte Molha <duartemolha at gmail.com> wrote:
> Dear developers...
> I was wondering if you could let me know what is going on with a
> annotation run I have done.
> here is the VCF line I am annotating:
> 22 20780091 . C
> G 37059.72 PASS
> GT:AD:DP:GQ:PL 1/1:0,47:47:99:1482,126,0
> and here is one of the my annotation output lines:
> 22_20780091_C/G 22:20780091 rs759610,rs77189880
> G HOM ENSG00000244486
> ENST00000266214 Transcript synonymous_variant
> as you can see from this line the gmaf frequency being reported is
> However I was using the filter_common flag so this variation should have
> been disregarded because the gmaf is above 0.01.
> Can you explain to be if I am doing something wrong here?
> Your help is much appreciated.
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