[Bioperl-l] display protein/CDS multiple sequence alignments with exon boundaries

Albert Vilella avilella at gmail.com
Fri Aug 31 05:29:43 EDT 2007


Hi,

Probably a bit of a long shot but does anyone have code for
displaying protein or CDS multiple sequence alignments with the exon
boundaries
of each gene in the alignment?

Something in the bioperl world without funky external dependencies. I think
it would
be an awesome addition to the howtos.

Currently, the Bio::Graphics howto has cdna to genome mapping scripts or
blast output scripts, but
I couldn't find code for dealing with multiple sequence alignments.

Cheers,

    Albert.


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