[Bioperl-l] pir format for input and output os sequences
heikki at nildram.co.uk
Thu May 13 18:38:48 EDT 2004
The desc() method is implemented in Bio::PrimarySeq class and is used via
inheritance by all other sequence classes.
It is populated by strings from SWISS-PROT DE line, GenProt DEFINITION line,
Before writing out the pir format you can set:
$seq->desc('any useful information');
Hope this helps,
On Thursday 13 May 2004 13:32, luisa pugliese wrote:
> Hi Bioperlers,
> I am interessed at working with the pir format because it is widely
> used in homology modeling.
> I saw that among bioperl SeqIO methods there is also pir and that the print
> section of this method is:
> return unless $self->_print(">P1;".$seq->id(),
> "\n", $seq->desc(), "\n",
> $str, "*\n");
> In the second line the method would write:
> I would like to fill this line with proper informations, but I didn't find
> the description of the desc method .
> Does anybody knows where can I find it or how can I pass some informations
> to it?
> Best regards
> Luisa Pugliese, Ph.D.
> luisa.pugliese at safan-bioinformatics.it
> S.A.F.AN. BIOINFORMATICS
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