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perseus:user:activities:matrixprocessing:wgcna:soft-threshold

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Soft-threshold

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

Soft-thresholding is covered by the official WGCNA tutorials.

Description

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

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.

perseus/user/activities/matrixprocessing/wgcna/soft-threshold.txt · Last modified: 2018/07/17 18:52 by rudolph