I was using DESeq2 to analyse a small set of data (7 conditions x 4 replicates = 28 samples). I only keep genes that have more than 10 counts in more than 2 samples. Now I got a very strange dispersion plot, almost the opposite of what is expected. The dispersion increases as the count increases. Does anyone know why this is the case? Can I still continue analysing the data as usual or should I adjust something?
Thanks a lot for your input!