Question

How to import both node and edge files into cytoscape from WGCNA?

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6.3 years ago

niutster ▴ 110

Hi,

I am a little new with cytoscape, I used exportNetworkToCytoscape command in WGCNA to export the network, the commands output cotaining nodes and edges files but in cytoscape ,only one file can be imported. do anybody know how can i import both files into cytoscape?

WGCNA Cytoscape node file edge file • 4.2k views

ADD COMMENT • link updated 5.1 years ago by zhaoliang0302 ▴ 50 • written 6.3 years ago by niutster ▴ 110

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Are you using desktop version of Cytoscape? If so is it MAC or windows?

ADD REPLY • link 6.3 years ago by chetana ▴ 60

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I use desktop version on windows.

ADD REPLY • link 6.3 years ago by niutster ▴ 110

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Have you solved this problem? I just meet it and I don't know how to deal with it

ADD REPLY • link 5.1 years ago by zhaoliang0302 ▴ 50

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Have you read the tutorial?; also, what have you actually tried?

ADD REPLY • link 5.1 years ago by Kevin Blighe 87k

score 1 · Answer 1 · 2017-12-28

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6.3 years ago

Kevin Blighe 87k

You should take a look at the tutorial written specifically for this by the WGCNA developers: Exporting a gene network to external visualization software

This question was also posted on Bioconductor, where one of the developers replied: WGCNA export to cytoscape.

Kevin

ADD COMMENT • link 6.3 years ago by Kevin Blighe 87k