How to load WGCNA TOM file?
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syrttgump ▴ 20
@syrttgump-7367
Last seen 16 months ago
United States

Hi All,

I am using WGCNA build a coexpression network. Here is the thing: I use blockwiseModules to build network, and saved TOM to a file. Then I want to calculate connectivity of genes by using the TOM data. I load TOM file into R workspace, it is a large dist class object. How can I transfer it into a matrix that both rows and columns are genes and values are the weights of gene pairs? So that I can use rowSum of colSum to calculate connectivity of each gene. Thanks!

wgcna connectivity • 1.7k views
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I found it. I can use as.matrix function. TOM data is a dist object.

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