[BioRuby] bioruby genome browser?

[Toshiaki Katayama]

Dear Todd,

Sorry for my delay in responding.

http://gb.bioruby.org/ is defunct as the backend server crashed in 2003 (or was 2002?).
It was written in Ruby using BioRuby, GD, libplot libraries and
all the GenBank data was stored in MySQL with a original schema.

After that, I'm using GBrowse for my site at http://das.hgc.jp/ for this purpose.
I'm still interested in to have genome visualization functionality in BioRuby or
in the BioRuby shell, however, it would need some time to implement.
It would also be nice to utilize DAS sources and/or BioPerl's GFF schema in it,
but it should also have unique characteristics compared with GBrowse to find a niche.

Regards,
Toshiaki Katayama

On 2005/12/17, at 12:52, Todd Wasson wrote:

> I'm looking into easy to use generic genome representation and browser packages, and I'm curious if bioruby has any kind of browser capability akin to what Lincoln Stein's GBrowse is for bioperl.  Googling digs up some old links to a now seemingly defunct http://gb.bioruby.org/ site, but that's not much help any more.  Is something like this out there somewhere?  Is it actually in bioruby and I just haven't managed to uncover it yet?  If not, are there plans or this?  I suspect it would be no minor task for me to implement myself, just to get where GBrowse is, so I'm really hoping something is available...
>
> Thanks for any information you can provide!
>
>
> Todd
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