Scale independence and Mean connectivity in WGCNA?

Question

[1234anjalianjali1234]

Hi,

I am trying to find the co-expression in my RNA-Seq data (Control vs Treatment) using WGCNA. But I am getting some weird plot for Scale independence and Mean connectivity and based on that how can i select the soft threshold.

Thankyou

[andres.firrincieli]

what is the output of

dim(datExpr) # I am supposing that your expression matrix is called datExpr

[1234anjalianjali1234]

Hi Andres, My expression matrix is input_mat

> dim(input_mat)
[1]    6 2243

[andres.firrincieli]

You can't run wgcna with just 6 samples. You will need at least 15 samples

[1234anjalianjali1234]

Thankyou so much