[ensembl-dev] Hello, Abount 1KG.phase3 data ?

[Anne Lyle]

We use CrossMap for our assembly converter tool - you can input VCF files, though it will take a long time with large amounts of data.

If you don’t want to use the online tool, you will need to download and install CrossMap (a Python script) and also obtain our chain files and FASTA files, which I think are available from the FTP site.

Cheers

Anne


> On 12 Jun 2015, at 09:27, namchul ghim <chulghim at gmail.com <mailto:chulghim at gmail.com>> wrote:
> 
> Really thanks..
> 
> If it is possible, can i get the liftOver tools and  how to use ?
>   ((  GRCh37  -> GRCh38   ))
> 
> 
> 
> 
> 
> 
> On Fri, Jun 12, 2015 at 5:15 PM, Will McLaren <wm2 at ebi.ac.uk <mailto:wm2 at ebi.ac.uk>> wrote:
> Hello,
> 
> Sorry, this is a bit hard to find on our FTP.
> 
> ftp://ftp.ensembl.org/pub/grch37/release-79/variation/vcf/homo_sapiens/ <ftp://ftp.ensembl.org/pub/grch37/release-79/variation/vcf/homo_sapiens/>
> 
> Will McLaren
> Ensembl Variation
> 
> 
> 
> On 12 June 2015 at 05:44, namchul ghim <chulghim at gmail.com <mailto:chulghim at gmail.com>> wrote:
> I want to download 1KG.phase3.GRCh37.vcf.gz 
> Can i get it?
> 
> 1KG.phase3.GRCh38.vcf.gz exist.
> but I can't find GRCh37 version...
> 
> Thanks..
> 
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