Soft threshold

Author

Cox Lab

Published

June 27, 2024

This activity is provided through the R-language integration into Perseus and therefore requires R as well as the WGCNA package to be installed. See WGCNA for more information and installation instructions.

Soft-thresholding is covered by ~~official WGCNA tutorials~~. Unfortunately, the tutorial is not online anymore.

But one possible option is the discussion on Bioconductor.org

1 Description

Find the best power parameter for co-expression analysis. The goal is to find a network with good scale-free fit.

2 Output

The output matrix contains properties of co-expression networks constructed for each choice of the power parameter. It is best explored by plotting power against the other properties in a scatter plot. Select the lowest power with a high scale-free fit index SFT.R.sq for the analysis.