[ensembl-dev] VEP check existing.

[Duarte Molha]

Sorry to be frank Guillermo, but don't you think that is something you can quick find out without asking the dev forum?
Especially since there is a field on the output called "Existing_variation"!

If the variation has multiple names each ID is comma separated.

Best regards

Duarte


From: dev-bounces at ensembl.org [mailto:dev-bounces at ensembl.org] On Behalf Of Guillermo Marco Puche
Sent: 23 May 2013 07:29
To: Ensembl developers list
Subject: Re: [ensembl-dev] VEP check existing.

What's the field name on output?

On 05/22/2013 06:50 PM, Duarte Molha wrote:

In that case the field remains empty or with a dash of the fields is part of the main annotation fields (the default behavior)
On 22 May 2013 16:45, "Guillermo Marco Puche" <guillermo.marco at sistemasgenomicos.com<mailto:guillermo.marco at sistemasgenomicos.com>> wrote:
In case it doesn't exist what's the behavior then?

On 05/22/2013 05:20 PM, Duarte Molha wrote:
It does exactly that ... it checks Ensembl to find out if the variation you are annotation has already been added to the database (ie has a RS id identifier)

=========================
     Duarte Miguel Paulo Molha
         http://about.me/duarte
=========================

On Wed, May 22, 2013 at 4:09 PM, Guillermo Marco Puche <guillermo.marco at sistemasgenomicos.com<mailto:guillermo.marco at sistemasgenomicos.com>> wrote:
Hello,

I'm a bit in doubt with the follow VEP option, --check_existing.

I'm not really sure what it does. I've read the description like a hundred times and i'm still confused. If someone could explain this in detail it would be awesome.


Thank you.

Best regards,
Guillermo.

_______________________________________________
Dev mailing list    Dev at ensembl.org<mailto:Dev at ensembl.org>
Posting guidelines and subscribe/unsubscribe info: http://lists.ensembl.org/mailman/listinfo/dev
Ensembl Blog: http://www.ensembl.info/





_______________________________________________
Dev mailing list    Dev at ensembl.org<mailto:Dev at ensembl.org>
Posting guidelines and subscribe/unsubscribe info: http://lists.ensembl.org/mailman/listinfo/dev
Ensembl Blog: http://www.ensembl.info/




_______________________________________________

Dev mailing list    Dev at ensembl.org<mailto:Dev at ensembl.org>

Posting guidelines and subscribe/unsubscribe info: http://lists.ensembl.org/mailman/listinfo/dev

Ensembl Blog: http://www.ensembl.info/

-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://mail.ensembl.org/pipermail/dev_ensembl.org/attachments/20130523/f38414f8/attachment.html>