I had already obtained a group of significant proteins after performing analysis on data obtained from LC-MS.
I would like to perform network analysis on selected proteins using WGCNA package in R.
Network analysis using WGCNA:-
- Removed outlier samples and Genes.
- Identified softpower (Beta) for singed network.
- Identified modules using one step network construction using blockwisemodules()
- Removed grey module which includes genes not assigned to any modules.
Now, the challenge for me is to identify significant modules and further creating network in cytoscape.
As of now I would like to identify which module is significant.
Conditions for my dataset:
Condition A with 10 replicates and Condition B with 10 replicates.
And for each sample I had age and sex as trait data.
Please if anyone could help me with this.
Thanks in advance.