<html><head><meta http-equiv="Content-Type" content="text/html; charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; line-break: after-white-space;" class="">Hi,<div class=""><br class=""></div><div class="">Gnomad exome is used for the VEP endpoint. REST VEP relies on a cache, and as such has associated limitations as outlined here: <a href="https://www.ensembl.org/info/docs/tools/vep/script/vep_cache.html#cache" class="">https://www.ensembl.org/info/docs/tools/vep/script/vep_cache.html#cache</a>. </div><div class=""><br class=""></div><div class="">The populations that show up in the VEP endpoint are the ones isolated using the VEP flags —af_gnomad and —af_1kg as defined in <a href="https://www.ensembl.org/info/docs/tools/vep/script/vep_options.html#basic" class="">https://www.ensembl.org/info/docs/tools/vep/script/vep_options.html</a>. Currently, the ALL population is not included, however this is an idea worth considering for a future release. Thank you for the suggestion.</div><div class=""><br class=""></div><div class="">Kind Regards,</div><div class="">Andrew<br class=""><div><br class=""><blockquote type="cite" class=""><div class="">On 18 Jul 2018, at 10:53, Wolf Beat <<a href="mailto:Beat.Wolf@hefr.ch" class="">Beat.Wolf@hefr.ch</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div class="">Thank you for the fast response.<br class=""><br class=""><br class="">There are two questions i still have:<br class=""><br class="">Is gnomad exome or genome used for the VEP endpoint?<br class=""><br class="">How are the populations selected that show up in the VEP endpoint? Or to be specific, why is the ALL population not part of it?<br class=""><br class=""><br class="">Kind regards<br class=""><br class="">Beat Wolf<br class=""><br class="">________________________________<br class="">From: Dev <<a href="mailto:dev-bounces@ensembl.org" class="">dev-bounces@ensembl.org</a>> on behalf of Andrew Parton <<a href="mailto:aparton@ebi.ac.uk" class="">aparton@ebi.ac.uk</a>><br class="">Sent: Wednesday, July 18, 2018 11:28:25 AM<br class="">To: Ensembl developers list<br class="">Subject: Re: [ensembl-dev] New VEP endpoint<br class=""><br class="">Hi,<br class=""><br class="">Thank you for your query. Population data can be taken form the REST API using the /variation/species/ID endpoint.<br class=""><br class="">For example, for the rsID contained in your email, you can access population data with the URL <a href="http://rest.ensembl.org/variation/human/rs58651353?content-type=application/json;pops=1" class="">http://rest.ensembl.org/variation/human/rs58651353?content-type=application/json;pops=1</a><br class=""><br class="">If there’s anything else that we can do to help, please don’t hesitate to ask.<br class=""><br class="">Kind Regards,<br class="">Andrew<br class=""><br class="">On 18 Jul 2018, at 10:11, Wolf Beat <<a href="mailto:Beat.Wolf@hefr.ch" class="">Beat.Wolf@hefr.ch</a><<a href="mailto:Beat.Wolf@hefr.ch" class="">mailto:Beat.Wolf@hefr.ch</a>>> wrote:<br class=""><br class="">Hello,<br class=""><br class=""><br class="">I was wondering, with the new VEP endpoint is there a way to get the "ALL" population from 100 genomes, gnomad etc.?<br class=""><br class="">Its also unclear to me if the gnomad exome or genome frequency is used.<br class=""><br class=""><br class="">In short, is there a way to get the same information that is present on the webpage under population genetics (like <a href="http://www.ensembl.org/Homo_sapiens/Variation/Population?db=core;r=2:178751544-178752544;v=rs58651353;vdb=variation;vf=11676771#1000genomesprojectphase3_anchor" class="">http://www.ensembl.org/Homo_sapiens/Variation/Population?db=core;r=2:178751544-178752544;v=rs58651353;vdb=variation;vf=11676771#1000genomesprojectphase3_anchor</a> ) out of the ensembl REST endpoint? Right now it seems that there is much more information on the webpage.<br class=""><br class=""><br class="">To be clear, i don't actually need all the information on the webpage, all i actually need is the "ALL" population. But the fact that the webpage and the vep rest endpoint does not have the same information makes me think that something is missing.<br class=""><br class=""><br class="">Kind regards<br class=""><br class=""><br class="">Beat Wolf<br class="">_______________________________________________<br class="">Dev mailing list <a href="mailto:Dev@ensembl.org" class="">Dev@ensembl.org</a><<a href="mailto:Dev@ensembl.org" class="">mailto:Dev@ensembl.org</a>><br class="">Posting guidelines and subscribe/unsubscribe info: <a href="http://lists.ensembl.org/mailman/listinfo/dev" class="">http://lists.ensembl.org/mailman/listinfo/dev</a><br class="">Ensembl Blog: <a href="http://www.ensembl.info/" class="">http://www.ensembl.info/</a><br class=""><br class="">_______________________________________________<br class="">Dev mailing list <a href="mailto:Dev@ensembl.org" class="">Dev@ensembl.org</a><br class="">Posting guidelines and subscribe/unsubscribe info: <a href="http://lists.ensembl.org/mailman/listinfo/dev" class="">http://lists.ensembl.org/mailman/listinfo/dev</a><br class="">Ensembl Blog: <a href="http://www.ensembl.info/" class="">http://www.ensembl.info/</a><br class=""></div></div></blockquote></div><br class=""></div></body></html>