Question: WGCNA soft threshold power showing very strange values
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gravatar for aleeeceeea
10 weeks ago by
aleeeceeea0
London
aleeeceeea0 wrote:

My plot of soft threshold (power) vs. scale free topology model fit looks very different from the tutorial plot & other WGCNA plots online.

It starts with a power of 1 with a value of over 0.8, then rapidly decreases to values around 0.2 for powers over 3.

Does this mean I should use a softPower of 1?

The data is normalised bacterial OTUs relative abundance levels (from 16s rRNA profiling).

enter image description here

image of my plot: https://ibb.co/Lgg4szy

ADD COMMENTlink modified 9 weeks ago by Peter Langfelder1.8k • written 10 weeks ago by aleeeceeea0
Answer: WGCNA soft threshold power showing very strange values
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gravatar for Peter Langfelder
9 weeks ago by
United States
Peter Langfelder1.8k wrote:

I recommend reading the relevant part of WGCNA FAQ, especially question 6. I don't have any experience with metagenomic data, so I can't give you a more informed answer, but it is always helpful to plot the sample clustering tree and/or PCA plot to make sure nothing weird is going on.

ADD COMMENTlink written 9 weeks ago by Peter Langfelder1.8k
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