Off topic:Gene Co-expression analysis with less number of replicates

Question

[amoltej]

Hello,

I have 3 tissue samples with three replicates each (HiSeq data). I want to do gene network co expression analysis on this data. can anybody suggest me best software to do this analysis. I was reading about WGCNA but they recommend it to have at least 20 samples. is there any equally strong alternative for this?

Thank you for support Amol