[Bioperl-l] avoiding temporary files

[Jason Stajich]

See the Bio::PrimarySeq or Bio::Seq perldoc man pages
(online at docs.bioperl.org)

my $seqstring = 'CAGTGTA';
my $seq = new Bio::Seq(-seq => $seqstring,
		       -display_id => 'IDNUMBER',
		       -desc => 'a description might go here');


On Wed, 17 Apr 2002, Stephen Baird wrote:

> Hi,
>   I think this is a basic perl question but I can't figure it out and
> since it is with my bioperl calls I'm sure one of you will know the
> answer.  I would like to take a sequence file that is in a single variable
> like from a textarea of a webpage and make it into a sequence object
> without writing it to a temporary file.  It would be nice for me to do
> this with any program that I call through perl....like blastall where the
> query sequence does not have to be written as temporary file.
>
> Is this possible?
>
> Thanks,
>
> Stephen Baird
> Molecular Genetics
> Children's Hospital of Eastern Ontario
> 401 Smyth Rd.
> Ottawa, Ontario
> Canada
> K1H 8L1
>
> tel: 613-738-3925
> fax: 613-738-4833
>
>
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-- 
Jason Stajich
Duke University
jason@cgt.mc.duke.edu