[Bioperl-l] Multiple sequence alignment consensus generation

[Heikki Lehvaslaiho]

David,

UnivAlign is not supported any more. I've been adding more methods into
SimpleAlign lately but have not thought about doing this and doubt anyone
has the code ready. It should be easy  enough to do by modifying a copy of
the  existing consensus code. Do you want to do it? I'd be happy to put into
the distribution file.

	-Heikki


"David J. Evans" wrote:
> 
> I'm working on a project in which I need to generate single letter codes for
> non-conserved positions in an alignment i.e Y = C or T, B = C or G or T.
> I'm, using UnivAln and/or SimpleAlign to handle my alignments - both will
> generate consensuses (consensi ?), but of the format ACGGG!!T as opposed to
> ACGGGYBT.  Has anyone written a subroutine to achieve this, and if not,
> would others find it useful ?  If the former, could it be posted ?
> David
> 
> =====
> David J. Evans
> Institute of Virology  |  David.Evans@vir.gla.ac.uk
> University of Glasgow  |  Tel/Fax : +44 0141 330 6249
> Church Street          |  SMS/Mobile : +44 07940 592768
> GLASGOW G11 5JR        |  http://www.polio.vir.gla.ac.uk/
> 
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______ _/      _/_____________________________________________________
      _/      _/                      http://www.ebi.ac.uk/mutations/
     _/  _/  _/  Heikki Lehvaslaiho          heikki@ebi.ac.uk
    _/_/_/_/_/  EMBL Outstation, European Bioinformatics Institute
   _/  _/  _/  Wellcome Trust Genome Campus, Hinxton
  _/  _/  _/  Cambs. CB10 1SD, United Kingdom
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