I am following the standard RNA-seq analysis workflow to make sense of some experimental data, using the DESeq2 package. Here is the MA-plot I have:
I am not concerned about the low log-fold change, but this looks a bit weird, since I would have expected the major part of the genes to be found in the low counts range.
I followed the standard pipeline for this analysis. Is there any obvious reason why I am having this kind of result?