[BioPython] Graphics similar to bioperl Bio::Graphics

[Leighton Pritchard]

Hi Sean,

There isn't anything directly comparable to Bio::Graphics as far as I am
aware, but I think there are a couple of graphics packages in
BioPython.  

I have written scripts, using the Python Imaging Library, to generate
graphical summaries of BLAST output similar to Bio::Graphics output, and
you're welcome to those, if you like (they are *very* ad hoc, though,
and I'm not proud of them).

Also, and possibly more suited to what you want, there is GenomeDiagram,
which uses BioPython and ReportLab to generate images of genome-scale
data.  You can find that at
http://bioinf.scri.ac.uk/lp/programs.html#genomediagram - I have plans
to change the structure significantly, and use a different backend for
browsing interactively (ATM you have to open up the images in something
like Acrobat Reader), but there's no motion on that, yet.  I wrote it
mostly because there wasn't a Bio::Graphics equivalent module.

As an aside, I'm happy to contribute the GenomeDiagram code to
BioPython, if people are interested. 

L.

On Wed, 2006-11-29 at 14:30 -0500, Sean Davis wrote:
> I have some data that I would like to display in a genome browser-type view.  
> I've looked around and haven't found anything quite akin to Bio::Graphics 
> (from Lincoln Stein) in python.  Does such a thing exist?  If not, what are 
> folks using for graphics work?
> 
> Thanks,
> Sean
> _______________________________________________
> BioPython mailing list  -  BioPython at lists.open-bio.org
> http://lists.open-bio.org/mailman/listinfo/biopython
> 
-- 
Dr Leighton Pritchard AMRSC
D131, Plant Pathology, Scottish Crop Research Institute
W: http://bioinf.scri.ac.uk/lp     E: lpritc at scri.ac.uk
GPG: 0xE58BA41B <www.keyserver.net>
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