I know that WGCNA is widely used in co-expression analysis. I have a number of tumor samples and try to find significantly co-occurrent mutation across samples. My assumption is that certain combination of mutations is pathological.
I am not sure if WGCNA can be used for co-mutation. Is there any method for such analysis? Beside, I imagine that such co-mutation is usually sparse results. Do I need large amount of samples accordingly?