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I have pvalues for differentially expressed genes in two yeast samples,under different conditions. I'm trying to find the pathways that are significantly associated to (up and down regulated) genes within and between samples. All of the examples and tutorials that I can find that I believe might apply to this analysis start with .cdm files. I only have excel files. When I try to import them, Gitools calls it a .tdm file. I think this is one of the reasons the heat maps I'm getting are not making sense.
Any insight? I've attached the files that I'm trying to work with.