Jarrett,
At 11:31 AM -0700 5/4/09, jebyrnes wrote:
Nearly. The algorithm turns up slightly different graphs each time (and
set.seed doesn't seem to make it consistent) and periodically chokes. But
better than what I had. Hrm. I don't know much about the algorithm
graphviz uses for dot. Do you have a reference on hand? If it's simple,
I'd be willing to take a whack at it.
Gábor Csárdi-2 wrote:
Jarrett,
the 'igraph' package has a layout called layout.reingold.tilford that
is designed for trees, there is a slight chance that it is good enough
for you.
Best,
Gabor
On Wed, Apr 29, 2009 at 10:11 PM, jebyrnes <[email protected]> wrote:
I've been using sna to work with some networks, and am trying to
visualize
them easily. My networks are hierarchical (food webs). All of the
layout
engines I've tried with gplot don't seem to plot hierarchical networks,
as
one would using dot from graphviz. While I could do all of this by
outputting to dotfiles and running it through graphviz, the graphics I
get
from R are much cleaner, and more easily integrated into my analyses.
Is there any good way to diagram a hierarchical network in R, either with
the sna library or otherwise? It strikes me that at least the Netindices
package can calculate trophic levels. Could this be used for node
placement?
>> -Jarrett
>>
If you like the dot output from graphviz you can
get that using Rgraphviz from bioconductor.
Although somewhat difficult to install, once
installed it works beautifully.
Bill
--
William Revelle http://personality-project.org/revelle.html
Professor http://personality-project.org/personality.html
Department of Psychology http://www.wcas.northwestern.edu/psych/
Northwestern University http://www.northwestern.edu/
Attend ISSID/ARP:2009 http://issid.org/issid.2009/
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