Chapter 11 Identifying Marker Peaks with ArchR

We have introduced the identification of marker features previously in the chapter discussing gene scores. The same function (getMarkerFeatures()) can be used to identify marker features from any matrix stored in an ArchRProject. Marker features are features that are unique to a specific cell grouping. These can be very useful in understanding cluster- or cell type-specific biology. In this chapter, we will discuss how to use this function to identify marker peaks.