[Bioperl-l] display protein/CDS multiple sequence alignments with exon boundaries
cjfields at uiuc.edu
Tue Sep 11 18:40:55 EDT 2007
On Sep 11, 2007, at 4:15 PM, Jay Hannah wrote:
> Lincoln Stein wrote:
>> You can view a simple multiple alignment now. Go to www.wormbase.org
>> <http://www.wormbase.org>, turn on some of the EST tracks and then
>> zoom down to base pair level.
>> In bio::graphics, use the "segments" glyph and turn on the
>> -draw_target option. The features must have DNA attached to them.
> Wow. *http://tinyurl.com/yuz8bq* I hadn't seen that done before.
There is a section detailing how this is done in the GBrowse tutorial
(though it uses older GFF):
>> What's coming soon is support for MAF format, which provides
>> genome-level alignments.
> I'm looking forward to trying to wrap my head around that. :)
> Jay Hannah
It's easily parsible, which is nice!
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