[ensembl-dev] Non-chromosomal download through api

[Sergei Manakov]

hi Patroklos,

If by non-chromosomal sequences you are referring to unplaced
scaffolds (in GRCm38 those are called like GL456210.1, JH584292.1 and
etc.), then slices for them as well as for regular chromosomes can be
retrieved with this:

my @slices = @{ $slice_adaptor->fetch_all('toplevel') };


Sergei.



On 7 October 2012 11:55, Patroklos Samaras <patrik14 at gmail.com> wrote:
> Hi,
> My name is Patroklos and i started using the Ensembl Api a few months ago to
> download chromosomes etc.
> Two days ago I realized that in this way I don't get the whole Genome - So I
> need to download the non-chromosomal sequences too.
> I looked through the tutorials and documentation but didn't really find
> anything. Could anyone help me please?
>
> I'am using the 68 API version.
>
> Thanks in advance,
> Patroklos
>
>
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Sergei (Siarhei Manakou) Manakov

California Institute of Technology
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