Question: Bipartite network analysis using cytoscape
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gravatar for The Last Word
11 months ago by
The Last Word170
India
The Last Word170 wrote:

Hi,

I have a bipartite network of transcription factors and genes. I used network analyzer in Cytoscape and got a very low density for the network which is to be expected if density measurement is done for the network in the conventional way. I however found a paper which disputed that all measurements for bipartite networks should be done differently due to its very nature (reference). I have two questions

1) Does Cytoscape have an app that specifically works to get measurements from bipartite networks?

2) If not, I would like to explain in my paper that the density of the network is low and its diameter is large due to its bipartite nature. Are there any publications you are aware of that I could use to reference such a statement.

bipartite cytoscape • 808 views
ADD COMMENTlink modified 7 months ago by Biostar ♦♦ 20 • written 11 months ago by The Last Word170

You might try the Centiscape app. I'm not sure if it handles bipartite graphs, but it is a popular alternative to the built-in Network Analyzer.

http://apps.cytoscape.org/apps/centiscape

ADD REPLYlink written 11 months ago by xanderpico170
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gravatar for xanderpico
9 months ago by
xanderpico170
xanderpico170 wrote:

You might try the Centiscape app. I'm not sure if it handles bipartite graphs, but it is a popular alternative to the built-in Network Analyzer.

http://apps.cytoscape.org/apps/centiscape

ADD COMMENTlink written 9 months ago by xanderpico170
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