[ensembl-dev] variation allele population name

[Will Spooner]

On 4 Nov 2010, at 15:01, Will McLaren wrote:

> Hello,
> 
> You can get all the populations via a population adaptor:
> 
> my $pa = Bio::EnsEMBL::Registry->get_adaptor("human", "variation",
> "population");
> my @all_populations = @{$pa->fetch_all()};
> 
> This will give you a very long list however, as we import all
> populations from dbSNP and also have additional populations
> representing tissue types from the COSMIC somatic mutation database.
> 
> Release 60 of Ensembl (due next week) will include two additional
> methods that you may find interesting:
> 
> $pa->fetch_all_1KG_Populations
> $pa->fetch_all_HapMap_Populations
> 
> (1KG = 1000 genomes)

Hi Will,

Are you hard-coding human-specific studies into the Ensembl API, or will this be done with some sort of autoloaded method? I can imagine that EnsemblGenomes/Gramene would like something similar for Arabidopsis 1001 genomes and 2010 studies.

Thanks,

Will