[ensembl-dev] mfa genome cache

[Will McLaren]

Hi Roland,

We're not producing caches for pre! species at the moment.

You can generate your own from the GTF and FASTA files using gtf2vep.pl

http://www.ensembl.org/info/docs/tools/vep/script/vep_cache.html#gtf
ftp://ftp.ensembl.org/pub/pre/gtf/macaca_fascicularis/
ftp://ftp.ensembl.org/pub/pre/fasta/dna/macaca_fascicularis/ (you need
Macaca_fascicularis.MacFas_5.0.76.dna.toplevel.fa.gz)

You can try using the RefSeq GFF but historically this has proved
problematic for our parser.

Regards

Will McLaren
Ensembl Variation

On 21 March 2016 at 15:25, Schmucki, Roland <roland.schmucki at roche.com>
wrote:

> Hello
>
> Are you planning to add the Macaca fascicularis as a  pre-built cache for
> VEP?
> Possibly the RefSeq version 5.0
>
> Many thanks and kind regards,
> Roland
>
>
>
> --
>
> Roland Schmucki, PhD
> Computational Biologist, Pharmaceutical Sciences
> Roche Pharma Research and Early Development
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