[BiO BB] graph-theory-software
boris.steipe at utoronto.ca
Sun Jun 19 09:37:01 EDT 2005
Many people working with biological networks use cytoscape.
On Sunday, Jun 19, 2005, at 06:33 America/Montreal, Dan Bolser wrote:
> My favourite is JUNG (Java Universal Network and Graph Archetecture),
> again you probably have to change your graph format.
> On Sat, 18 Jun 2005, Iddo Friedberg wrote:
>> GraphViz might be what you are looking for. It will mot take a binary
>> matrix file as input (well, there is no real standard for those) but
>> can easily convert to GraphViz readable files. Their syntax is very
>> Iddo Friedberg, Ph.D.
>> The Burnham Institute
>> 10901 N. Torrey Pines Rd.
>> La Jolla, CA 92037, USA
>> Tel: +1 (858) 646 3100 x3516
>> Fax: +1 (858) 646 3171
>> Automated Protein Function Prediction Meeting, June 24, 2005
>> On Sun, 19 Jun 2005, vijaya raj wrote:
>>> i have a binary matrix file, representing a biological network.
>>> is there any graph theory software that would allow me to draw the
>>> network, taking the binary matrix file as the input...
>>> thanks in advance for sparing your time.
>>> vijayaraj nagarajan
>>> department of biological sciences
>>> the university of southern mississippi
>>> ms, usa
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