Question: How does WGCNA decide which genes are connected?

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jolespin •

**120**wrote:I'm using the **Weighted Gene Coexpression Network Analysis** package (**WGCNA**) in **R** and I am trying to figure out how the **adjacency matrix** is defined.

**I understand how the correlation matrix is created along with why the power is used but adjacency matrices should be either 1 or 0.**

Why are there still continuous values? How does it choose a cutoff later?

I can understand that it's maybe a weighted adjacency matrix but there isn't an option to make it binary and that is needed for the topological overlap matrix calculation (TOM)

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modified 2.1 years ago
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sina.nassiri •

**20**• written 3.1 years ago by jolespin •**120**