[ensembl-dev] how to get sequence for a StructuralVariationOverlapAllele?

[Will McLaren]

Hi Michael,

Not currently, no, as we don't carry the information of "alleles" for
structural variants as such.

The API support for structural variants is gradually developing; as
you can see it currently limited to some fairly basic functionality.

Cheers

Will

On 18 April 2012 23:20, Michael Yourshaw <myourshaw at ucla.edu> wrote:
> Is it possible to get the reference and non-reference sequence for
> a StructuralVariationOverlapAllele, similar to
>         $reference_allele =
> $bvfoa->{transcript_variation}->{reference_allele}->variation_feature_seq;
>         $non_reference_allele = $bvfoa->variation_feature_seq;
>
>
> ॐ
>
> Michael Yourshaw
>
> UCLA Geffen School of Medicine
> Department of Human Genetics, Nelson Lab
> 695 Charles E Young Drive S
> Gonda 5554
>
> Los Angeles CA 90095-8348 USA
>
> myourshaw at ucla.edu
>
> 970.691.8299
>
> This message is intended only for the use of the addressee and may contain
> information that is PRIVILEGED and CONFIDENTIAL, and/or may contain ATTORNEY
> WORK PRODUCT. If you are not the intended recipient, you are hereby notified
> that any dissemination of this communication is strictly prohibited. If you
> have received this communication in error, please erase all copies of the
> message and its attachments and notify us immediately. Thank you.
>
>
>
>
>
>
> _______________________________________________
> Dev mailing list    Dev at ensembl.org
> List admin (including subscribe/unsubscribe):
> http://lists.ensembl.org/mailman/listinfo/dev
> Ensembl Blog: http://www.ensembl.info/
>