Hello everyone, I've recently been thinking about how we can move forward with the DIFFERENTIAL_EXPRESSION subworkflow. The implementation currently contains some problems, as I pointed out two messages above. Also it is rather hard to maintain in the current state. When refactoring the subworkflow I came to the conclusion that it might be preferable to just provide users with count matrices and refer them to #C045UNCS5R9 for further analysis. There are two things that I would like to preserve: 1. CIRCTEST which I plan to put into a new subworkflow STATISTICAL_TESTS, so that we can add other analyses if necessary 2. The pipeline also provides users with a SummarizedExperiment object, potentially allowing for inferential uncertainty aware DEA using Swish. Maybe we can add this functionality to #C045UNCS5R9. Will discuss with the maintainers over there. Any thoughts on this?

cc @Jonathan Manning