Hi guys,I have a gene list that I have got after DEG analysis for 3 different GSE datasets.Not I want to perform a weighted gene co-expression analysis on this DEG list.Which format or method should i make my file so that i can use the list in R.Should I just put the gene list in a column ? or should i annotate each gene..
Dear @ ghataksoumyakanti
The initial entry is a normalized gene expression matrix, with the rows representing the genes and columns representing the sampleS.
I think you should spend some time reading WGCNA TUTORIAL if you haven't done it yet.
If you are experiencing difficulties with the WGCNA, The CEMiTool can be an easier way to do the same analysis.