[Bioperl-l] Entrezgene.pm $uncaptured data

Brian Osborne osborne1 at optonline.net
Wed Sep 6 09:49:41 EDT 2006


Liisa,

$uncaptured is a reference to a plain array, not an object.

Brian O.


On 9/6/06 8:38 AM, "Liisa Koski" <koski at cenix-bioscience.com> wrote:

> Hi,
> I'm curious about the $uncaptured data returned from the entrezgene parser. I
> can't seem to find any info on it. The $gene and $genestructure data is
> straightforward (see below) but can someone please tell me how the
> $uncaptured data is structured? I'm trying to pull out Conserved Domain
> information and I'm pretty sure it's contained in the $uncaptured data.
> 
> Thanks,
> Liisa
> 
> Below is taken from the POD description:
> 
>    my $seqio = Bio::SeqIO->new(-format => 'entrezgene',
>                                -file => $file,
>                                -debug => 'on' );
>    my ($gene,$genestructure,$uncaptured) = $seqio->next_seq;
> 
> The $genestructure is a Bio::Cluster::SequenceFamily object. It
> contains all Refseqs and the genomic contigs that are associated with
> the particular gene.
> 
> 
> ....what object does $uncaptured refer to? If any?
> 
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