[ensembl-dev] filter_common filter not working
duartemolha at gmail.com
Fri Aug 23 10:55:45 BST 2013
Great... Thank you for your quick work :)
Duarte Miguel Paulo Molha
On Fri, Aug 23, 2013 at 10:31 AM, Will McLaren <wm2 at ebi.ac.uk> wrote:
> 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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