[Bioperl-l] getting patterns consensus

Stefan Kirov skirov at utk.edu
Fri Jul 22 13:39:07 EDT 2005

Thanks, but actually the module is written by Aaaron Mackay, so I guess 
your gratitude goes to him :-) .

khoueiry wrote:

> Thanks,
> Kirov, Your method did exactly what I need. brian, no I  don't think 
> that Bio::Tools::SeqPattern resolve the prob unless  something's 
> missing me.
> Thanks again
> Pierre
> Le vendredi 22 juillet 2005 à 10:59 -0400, Stefan Kirov a écrit :
>>Yes. Look at Bio::Tools::IUPAC. Create the Bio::Seq object, using IUPAC 
>>coding for ambiguous nucleotides (see the documentation) and then create 
>>the IUPAC object based on the seq one. Then use next_seq method- it will 
>>give you exactly what you need.
>>khoueiry wrote:
>>>Hi all,
>>>Let's admit that I have the following pattern : 
>>>Is there a bioperl method or a fine/fast perl way to get all the
>>>consensus relative to that pattern:
>>> (i.e)
>>>Bioperl-l mailing list
>>>Bioperl-l at portal.open-bio.org <mailto:Bioperl-l at portal.open-bio.org>

Stefan Kirov, Ph.D.
University of Tennessee/Oak Ridge National Laboratory
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e-mail: skirov at utk.edu
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