[ensembl-dev] gtf of watson snps

[Graham Ritchie]

Hi Andrea,

We will be making a GVF dump of all Watson SNPs available for the next ensembl release (61). This will not include consequences until the following release 62 because GVF requires allele-specific consequences which the current consequence pipeline cannot provide, and the new one will not be ready for 61. I can probably create such a file before then (but after release 61) for you though, because I need to test the GVF generation with the new code. 

You should be able to fetch all the information you need from the API already though?

Cheers,

Graham


On 10 Jan 2011, at 17:07, Andrea Edwards wrote:

> Hello
> 
> I recently saw this link of a download available from ensembl
> 
> http://galaxy.fml.mpg.de/library_common/ldda_info?library_id=2f94e8ae9edff68a&show_deleted=False&cntrller=library&folder_id=2f94e8ae9edff68a&use_panels=False&id=39b9f5f151019d2f
> 
> I was wondering if you had anything similar available for watson snps?
> 
> I was also wondering if you had anything like this available which provides the consequences of the watson snps? I know i can run the watson snps through Will McLarens excellent snp effect predictor program but i wondered if you had already done it and made the results available.
> 
> thanks
> 
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