[ensembl-dev] VEP distance cutoff

[Genomeo Dev]

Thanks very much.

G.


On 4 February 2014 22:02, Will McLaren <wm2 at ebi.ac.uk> wrote:

> Hello,
>
> The default cutoff is 5000 bases.
>
> There is no parameter in the VEP itself, but there is a plugin available
> that can be used to change the parameter.
>
>
> https://github.com/ensembl-variation/VEP_plugins/blob/master/UpDownDistance.pm
>
> http://www.ensembl.org/info/docs/tools/vep/script/vep_plugins.html
>
> Regards
>
> Will McLaren
> Ensembl Variation
>
>
> On 4 February 2014 17:48, Genomeo Dev <genomeodev at gmail.com> wrote:
>
>> Hi,
>>
>> Using VEP in Ensembl VM v74
>>
>> 1. I was wondering what distance cutoff does VEP use to assign
>> neighbouring genes to input variants.
>> 2. Is there a parameter to handle that?
>>
>> Thanks,
>>
>> Genomeo
>>
>>
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>
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