Hi to the experts,
I am new to RNA-Seq analysis and tried using limma on my data. After voom transformation, I get something like in the image attached. I double checked the metadata used for creating the DGElist and they all seem fine. Has anybody seen a trend like this? I cannot figure out what might be causing this. If you could please explain, would be more than great. I am really stuck in this and want to get out of it so badly... The link to the image is here: https://drive.google.com/open?id=0Bx6HyClNrtOXS1RpMnJYUE9ZZEk
Thanks a lot in advance.
OP, did you ever figure this out? I see something similar if I don't filter out lowly expressed genes but do still see a strong positive relationship after doing so