I performed a DeSeq2 analysis and after I performed the lfcshrinkage command, I obtained very small log2fold changes for some of my results. As a consequence, my enhanced volcano plot looks very weird. These are the values for the results before I performed lfcshrinkage:
Gene log2fold change ENSG00000184330 -9.582811812
These are the outputs after I performed the lfc shrinkage command:
As well, I have attached the two volcano plots: The first one is performed before lfcshrinkage and the 2nd plot contains the results after lfcshrinkage was performed
Has anybody obtained similiar results like this?
Thank you very much for any help.