[Bioperl-l] getting patterns consensus

[Brian Osborne]

Pierre,

I haven't taken a very close look but I believe you can do this with
Bio::Tools::SeqPattern. There's an accompanying script,
examples/tools/seq_pattern.pl.

Brian O.


On 7/22/05 10:38 AM, "khoueiry" <khoueiry at ibdm.univ-mrs.fr> wrote:

> Hi all,
> 
> Let's admit that I have the following pattern :
> 
> $PAT = A[AT]GAT[CT]A
> 
> Is there a bioperl method or a fine/fast perl way to get all the
> consensus relative to that pattern:
>  (i.e)
> 
> AAGATCA
> AAGATTA
> ATGATCA
> ATGATTA
> 
> Thanks
> 
> pierre
> 
> 
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