[Biophp-dev] example using the Seq class

[Nico Stuurman]

Hi Can,

> Can I get some sample code using the Seq class?

$seqo=new seq;         // if we are on the - strand, reverse complement
  if ($strand=='minus') {
       $sequence=revcomp($sequence,'DNA');         }
$seqo->attribute('sequence',$sequence);
$seqo->attribute('seqlength',strlen($sequence));
$seqo->attribute('moltype','DNA');
$proto=new seq;
$proto->sequence=$seqo->translate(0,1);
$proto->attribute('moltype','PROTEIN');


> I wasn't sure how to use it since I couldn't find a constructor.

I guess there is none at the moment...

See the directory testfiles for examples of using the seqIOimport class 
(which gives you a parser that can return a seqobject).



Best,


Nico


> Thanks,
> Can
>
>
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