I have used edgeR in Galaxy to perform differential expression analysis. As output I have 3 files with a list of differentially expressed genes (comparison between 3 different groups of samples) with log(FC), log(CPM), FDR, etc. I also have a separate file containing the normalized counts, but for all the different samples within each group.
To make a heatmap out of the diferentially expressed genes, how can I cross the information between the counts file and the DEG files to select only the genes of interest in the counts file?
Thanks in advance.