I have the mRNA expression data for 4 groups of samples (2-3 samples per group), based on different genetic backgrounds and treatments. While the dendrogram segregates group #1 from the remaining 3 groups at the first branch of the dendrogram, it is not visually clear from the heatmap.
Is it possible to find out why group 1 is segregated at the the first branch so as to re-arrange the gene lists to maximize the visual effect of the results on the heatmap ?
ps. can upload the heatmap but would need some technical help as to how to do it on the forum