Question: cytoscape subnetwork from WGCNA based modules
0
gravatar for archie
8 weeks ago by
archie70
India
archie70 wrote:

Hello

I have identified modules linked to some traits of interest in our study. All modules were imported in cytoscape. As next step, I want to predict subnetwork using TieDie ( one of the cytoscape App). One of the network consist of 102 edges and 306 nodes. After running, TieDie on that network, I am getting same 102 edges and 306 nodes , indicates no subnetwork was created.

If anyone has experience how to use it, Please help me here to fix this.

I will aprreaciate all the suggestions

Thanks

cytoscape subnetwork tiedie • 166 views
ADD COMMENTlink modified 8 weeks ago by RamRS19k • written 8 weeks ago by archie70
0
gravatar for Kevin Blighe
8 weeks ago by
Kevin Blighe32k
Republic of Ireland
Kevin Blighe32k wrote:

You must mean this: TieDIE - Tied Diffusion Through Interacting Events

You should try altering the parameters for TieDie and / or for WGCNA. Your network may already statistically be a sub-network itself. You could try a larger network size as input to TieDie.

Finally, there are other Cytoscape plugins that can identify sub-networks ('modules')

Kevin

ADD COMMENTlink written 8 weeks ago by Kevin Blighe32k
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