Question

Network analysis software

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7.8 years ago

siddharaj31893 • 0

which plugins is useful to calculate Degree in PPI network in Cytoscape software.

software error • 1.5k views

ADD COMMENT • link updated 7.8 years ago by Jean-Karim Heriche 27k • written 7.8 years ago by siddharaj31893 • 0

score 1 · Answer 1 · 2016-07-25

See this paper:

A travel guide to Cytoscape plugins

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3649846/

See "Plugins as steps in a network analysis workflow"

and the tutorial:

http://www.cgl.ucsf.edu/Outreach/Workshops/NIH-Oct-2012/Cytoscape/Analysis%20and%20Visualization%20of%20Biological%20Networks%20with%20Cytoscape%20v6.pdf

Search for PPI inside it to find necessary information.

score 1 · Answer 2 · 2016-07-26

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7.8 years ago

Jean-Karim Heriche 27k

The NetworkAnalyzer plugin/app is installed by default in Cytoscape. To find it go to Tools > NetworkAnalyzer > Network Analysis. Node degrees and other stats are available under Analyze network.

ADD COMMENT • link 7.8 years ago by Jean-Karim Heriche 27k