Hello everyone I came from statistics background now I learning WGCNA analysis for the micro array data by using R programming. When I used bolckwisemodule function I got around 8 modules. I'm unable to find out what are the significant genes from each module please help me for finding the significant genes.
WGCNA is not a technique for finding significant genes. Instead it is a clustering alogrithmn that clusters genes with correlated gene expression across samples together. Modules of genes are created using a dynamic tree cutting approach which doesn't have a hard threshold. That is, there is no statistical significance (in the p-value sense) attached to a gene being associated with a module. Are you looking to extract the genes that belong to each module?
If you want to find significantly different genes between two conditions I recommend using an algorithm designed for that purpose. The most common is limma.
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Kindly please help me how to find the significant genes for the micro array data