first time here and looking for help with two questions regarding songbird (thanks for the tool btw):
my q-score of both the null and baseline model are near zero and I tried quite a lot of adjustments to increase it. However, as my samples are all REALLY similar to each other, I assume this could be the reason?
I tried displaying the differentials in R using pheatmap and was just wondering if displaying the pure differentials is sufficient (I still cant really grasp the concept of intercept, even after the fairly well written blog post by one of the authors?
Thanks for any help