Definition of soft threshold power with wgcna: SFT.R.sq vs truncated.R.sq columns
I am testing several datasets using the wgcna tool. I am a bit confused with a particular results, to be precise the meaning of two columns of the output table: "SFT.R.sq" vs "truncated.R.sq" columns.
Let me explain with samples:
Let's to suppose that I pick up the power of 25 in the ntw1 (left), as I see in the output table, the SFT.R.sq column sets this power as 6.96911e-01, its equivalence would be 0.1434 if I am not wrong, meaning that not good adjustment to TOM found, but then in the column truncated.R.sq I can see a value of 0.6942. In fact if I set an abline in the plot at 0.70 it fits on power 25. This is a bit confuse to me.
Then, in the right plot (less confused to me because more closer the values), I see a SFT power of 28 is ~0.74, but again the truncated.R.sq is ~0.913.
Thus, I have read several resources but I am still confuse. First, I would like to know what a so high difference in the ntw1 between these 2 columns, and
Second, which is then the more accurate column of reference to define a SFT power?
I highly appreciate any help.
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