[ensembl-dev] No UK10K variation data from REST API

[Hielke]

Hello Nuno,

Thank you for your response. I hope you will add them!

However, I will point out a discrepancy. The REST endpoints give much
more databases than listed by info/variation/populations/homo_sapiens.
In fact, the UK10K populations are the only populations currently
missing from the REST endpoints. All others are given from the REST
endpoints.

Just take a look:

wget -q 'http://rest.ensembl.org/variation/human/rs699?pops=1' -O - |
grep population | uniq
wget -q 'http://rest.ensembl.org/info/variation/populations/human' -O
- | grep name

Hielke

Op di 25 jul 2023 om 10:05 schreef Nuno Agostinho <nuno at ebi.ac.uk>:
>
> Hi Hielke,
>
> There is indeed a difference between the populations for which we show frequencies in REST and the Ensembl variation site. Currently, our REST endpoints only return frequencies for the populations mentioned in http://rest.ensembl.org/info/variation/populations/homo_sapiens?content-type=application/json (which does not include UK10K frequency data).
>
> We are considering adding all frequencies available in the variation page to the variation REST endpoint for consistency. I will reply back to you when I have more news on this subject.
>
> Thanks for your suggestion!
>
> Best regards,
> Nuno
>
> On 20 Jul 2023, at 16:02, Hielke <hielkewalinga at gmail.com> wrote:
>
> Hello dev at ensembl.org,
>
> I see on the website that there is variation data from the UK10K
> project (e.g. rs699):
>
> https://www.ensembl.org/Homo_sapiens/Variation/Population?r=1:230845294-230846294;v=rs699;vdb=variation;vf=94
>
> But when I get this from the REST API, there is no UK10K population:
>
> http://rest.ensembl.org/variation/human/rs699?pops=1
>
> What is going wrong?
>
> Sincerely,
> Hielke
>
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