I have two single cell RNAseq datasets for different conditions (infected and uninfected). Before looking for cell type specific effects of infection I want to compare both datasets as a whole. Is there a tool to simulate bulk RNAseq from single cell data? Or do I simply sum the count for each gene across all cells? I want to do DE analysis for infected and uninfected bulk simulations

Thank you

The OSCA book is probably the go-to for most of your scRNA-Seq questions.