SCCAF for scATAC-seq

[RegnerM2015]

A super helpful tool for scRNA-seq analysis!

Could SCCAF be used to solve the "cluster resolution problem" in scATAC-seq as well?

Instead of genes, SCCAF could be used with variable peaks. Alternatively, SCCAF could be run on the pseudo-gene activity matrix created from the scATAC-seq dataset. This would give similar features for SCCAF to work with.

Methods for pseudo gene activity quantification:
Seurat: only promoter and gene body accessibility
Cicero: promoter, gene body, & linked distal element accessibility

Thanks in advance!