[ensembl-dev] VEP for Schizosaccharomyces Pombe

Will McLaren wm2 at ebi.ac.uk
Tue Feb 21 10:29:22 GMT 2012

Hi Chris,

Yes, it will work with any Ensembl Genomes species. You will need to
set the script to connect to the Ensembl Genomes MySQL server; there's
a shortcut flag, --genomes, which takes care of this for you.

perl variant_effect_predictor.pl --genomes --species schizosaccharomyces_pombe


Will McLaren
Ensembl Variation

On 21 February 2012 10:13,  <cj5 at sanger.ac.uk> wrote:
> Hi,
> Could you please confirm if the standalone perl script VEP is functional
> for S. pombe, and if so what version is required? This species is an
> option in the online version at fungi.ensembl.org but not on the main
> site.
> http://fungi.ensembl.org/tools.html
> http://www.ensembl.org/Homo_sapiens/UserData/UploadVariations
> Thanks
> Chris
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