[BiO BB] need help w/ VRML viewer for big graphs - Mozilla plug-in?

[Ann Loraine]

A hyperbolic viewer might be just the thing. We do want to "drill down" into
specific components of the graph.  So that could be what we need...

Let me know if you would recommend a particular one (or two) to try out
first. Maybe some-one on the list would know, as well?

One nice side benefit of LGL is that in the process of building layouts for
the graph, it seems to separate them into separate components, which is
useful.

Thanks for the suggestions!

-Ann

On 5/11/07, Joe Landman <landman at scalableinformatics.com> wrote:
>
> Hi Ann
>
> Ann Loraine wrote:
>
> > I'm just getting started with LGL, but it looks like it can give me a
> VRML
> > document that specifies the layout of large graphs (my biggest is 500K
> > edges, 9k nodes), and I'd like to find a VRML viewer that might be able
> to
> > handle such a large graph. (I've got a machine w/ 3 gig memory, and
> access
> > to a few others with even more memory, but I don't have admin privs on
> > those, so I'd like to avoid bugging the sysadmins about installing new
> > software until I'm sure I've got something that will work...)
> >
> > If anyone on the list can recommend a good VRML plug-in (for Mozilla) or
> > stand-alone viewer that might work for this application, I would be very
> > grateful!
>
> Hmmm... Maybe my info is dated, but I had used inventor viewer (the VRML
> 1.0 spec was effectively OpenInventor's spec) to view some molecular
> structures I created out of PDB and other coordinates.  Calls these
> fairly simple graphs, several thousand nodes, and tens of thousands of
> edges.  Inventor viewer worked fine for these, though I ran them on an
> SGI at the time.  I have run ivview recently on the same files on my
> laptop without problem.  So if they are v1.0 VRML compliant, you might
> try the OpenInventor viewer as a stand-alone.
>
> > Also, if you have any tips on visualizing large graphs, I'd be grateful
> for
> > those as well!
>
> Get lots of RAM.  And a fast graphics card (accelerated OpenGL) with
> lots of RAM :(
>
> > So far the only thing I've been able to find that appears capable of
> laying
> > out big graphs is LGL...but maybe there are some others?
>
> There are some hyperbolic space viewers for large connected graphs,
> though these are more for drilling in to specific nodes, than seeing the
> large scale structure of the system.
>
> >
> > Thank you in advance for your help!!!
> >
> > -Ann
> >
>
> --
> Joseph Landman, Ph.D
> Founder and CEO
> Scalable Informatics LLC,
> email: landman at scalableinformatics.com
> web  : http://www.scalableinformatics.com
> phone: +1 734 786 8423
> fax  : +1 734 786 8452 or +1 866 888 3112
> cell : +1 734 612 4615
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-- 
Ann Loraine
Assistant Professor
University of Alabama at Birmingham
http://www.transvar.org
205-996-4155