WGCNA TOM file
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!
• 4,526 views
•
link
written
by
syrttgump •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Requesting help with Edge Weighted Graph Creation (Cytoscape)
written by Guntaas •
-
WGCNA-1st step-weighted correlation network for labelfreequantified proteomics data
written by anusha •
-
Intramodular Connectivity in WGCNA: row names and NAs
written by rependo •
-
sample size on Pearson's correlation
written by hubsnets •
-
Estimating required memory for WGCNA analysis
written by klkeysb •
-
Modifying Edge Weights in WGCNA
written by shahroze786 •
-
Differential Coexpression Analysis
written by hkarakurt
-
TOMplot in WGCNA
written by vivien.wee16 •
-
What data should I use to generate a gene coexpression network?
written by tahermun •
-
Exporting Network To Cytoscape For Blockwise Module Construction
written by kk •
I found it. I can use as.matrix function. TOM data is a dist object.
If you are the same as this question in support.biodonctor post it there too please!