<!doctype html>
<html>
<head>
<meta charset="UTF-8">
</head>
<body>
<div>
Dear Anja,
<br>
</div>
<div>
I've been watching that webpage before, unfortunately is not enough for my purpose. I'm looking for some more detailed and explicit explanation, for example, the different fields that are mandatory or optional, the data type (integer, string, list...). With the example present in the webpage you sent me I don't know what are the data types, I cannot be sure what are the fields expected (what are the fields that can vary from one variant to another). Making the development of downstream tools quite difficult. I attached a screenshot I think will represent better what do I need.
<br>
</div>
<div>
<br>
</div>
<div>
Thank you very much
<br>
</div>
<div>
<br>
</div>
<div>
Kindly,
<br>
</div>
<div>
<br>
</div>
<div>
Alejandro G.
<br>
</div>
<div>
<br>
</div>
<blockquote type="cite">
<div>
On 26/10/2020 16:25 Anja Thormann <anja@ebi.ac.uk> wrote:
</div>
<div>
<br>
</div>
<div>
<br>
</div>Dear Alejandro,
<div class="">
<br class="">
</div>
<div class="">
we describe VEP’s json output format here: <a class="" href="https://www.ensembl.org/info/docs/tools/vep/vep_formats.html#json">https://www.ensembl.org/info/docs/tools/vep/vep_formats.html#json</a> I hope the description is detailed enough to help you with the tool integration. Please let me know if you have any more questions.
</div>
<div class="">
<br class="">
</div>
<div class="">
Kind regards,
</div>
<div class="">
Anja Thormann
<br class="">
<div>
<br class="">
<blockquote type="cite">
<div class="">
On 26 Oct 2020, at 14:30, Alejandro Garcia <<a class="" href="mailto:alejandro.garcia@institutimagine.org">alejandro.garcia@institutimagine.org</a>> wrote:
</div>
<br class="Apple-interchange-newline">
<div class="">
<div class="">
<div class="default-style">
<div class="default-style">
Hello,
<br class="">
</div>
<div class="default-style">
I'm Alejandro Garcia I'm Engineer working in Imagine Institute.
<br class="">
</div>
<div class="default-style">
Currently, I'm working with the docker VEP version 101 provided. I ran the following command to obtain the output in Json format, "./vep -i input.vcf -e -v --cache --assembly GRCh38 --json -o output.json --force_overwrite"
</div>
<div class="default-style">
I want to use these JSONs as input to handmade tools but I'm facing problems with the JSON structure in terms of possible fields, data types... I looked for more info in VEP website but I only found a simple explanation of the schema.
<br class="">
</div>
<div class="default-style">
<br class="">
</div>
<div class="default-style">
I would like to know if you have more detailed information about the JSON schema of the output with the different keys that can appear, if they are mandatory or optional, what is the value type of each field....
<br class="">
</div>
<div class="default-style">
<br class="">
</div>
<div class="default-style">
I found really interesting the option for outputting in JSON format it would be quite useful to have this information for further integration of VEP with other tools.
<br class="">
</div>
<div class="default-style">
<br class="">
</div>
<div class="default-style">
Thank you very much
<br class="">
</div>
<div class="default-style">
<br class="">
</div>
<div class="default-style">
Kind Regards,
<br class="">
</div>
<div class="default-style">
Alejandro G.
</div>
</div>
</div>_______________________________________________
<br class="">Dev mailing list <a class="" href="mailto:Dev@ensembl.org">Dev@ensembl.org</a>
<br class="">Posting guidelines and subscribe/unsubscribe info: <a class="" href="https://lists.ensembl.org/mailman/listinfo/dev_ensembl.org">https://lists.ensembl.org/mailman/listinfo/dev_ensembl.org</a>
<br class="">Ensembl Blog: <a class="" href="http://www.ensembl.info/">http://www.ensembl.info/</a>
<br class="">
</div>
</blockquote>
</div>
<br class="">
</div>_______________________________________________ Dev mailing list Dev@ensembl.org Posting guidelines and subscribe/unsubscribe info: https://lists.ensembl.org/mailman/listinfo/dev_ensembl.org Ensembl Blog: http://www.ensembl.info/
</blockquote>
</body>
</html>