What does it mean of de.genes in SingleR output? What is the difference between the genes in de.genes and genes in findMarkers?
I'm reading the SingleR book, and notice that SingleR returns de.genes in the output, which are differentially expressed genes for each label. But then in Chapter 4, to perform diagnostic of the cell type assignment, the author uses findMarkers function to get "empirical" marker genes. I wonder what's the difference between the genes in de.genes and genes from findMarkers?
• 65 views