[Bioperl-l] Multiple alignments and Biographics

Lincoln Stein lstein at cshl.edu
Tue May 4 12:50:30 EDT 2004

You need to create a padded virtual reference sequence to align each 
of the sequences to.


On Tuesday 04 May 2004 12:40 pm, Sean Davis wrote:
> Dear all,
> I am interested in forming multiple alignments between transcripts
> from the same gene cluster and rendering them using biographics.  I
> have alignments (from blast) from a set of oligos that I then want
> to include in the alignment.  Since multiple alignments do not have
> a "reference" sequence in this case, can anyone give me ideas about
> how to approach the problem with biographics?
> Thanks,
> Sean
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Lincoln D. Stein
Cold Spring Harbor Laboratory
1 Bungtown Road
Cold Spring Harbor, NY 11724

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