[ensembl-dev] VEP Request: Summary Statistics by Biotype

[Trevor Tanner]

Hi Will,

Thank you!  I didn't realize the fields were so easily accessible - I just
ended up making a simple script like you suggested and it worked great.

Thanks again,
Trevor

On Mon, Sep 19, 2016 at 2:41 AM, Will McLaren <wm2 at ebi.ac.uk> wrote:

> Hi Trevor,
>
> What specifically would you like to see - a breakdown of consequence types
> by biotype? Or just an overall summary of the number of each biotype
> overlapped?
>
> It would also be fairly straightforward to create these stats yourself
> from a VEP output file by isolating the relevant fields and counting the
> instances.
>
> Regards
>
> Will McLaren
> Ensembl Variation
>
> On 18 September 2016 at 21:13, Trevor Tanner <u0597274 at utah.edu> wrote:
>
>> Greetings,
>>
>> I am just wondering if "Summary Statistics" by biotype (especially
>> non-coding RNA) could be added to VEP's summary statistics?  For example,
>> right now I am using the "intergenic_variant" number in some analyses, but
>> I am worried that the number will change as new non-coding RNAs are added
>> to Ensembl's database.
>>
>> Any help would be more than appreciated.
>>
>> Thank you,
>> Trevor Tanner
>>
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