If choosing EDGER for my dab object should I choose one of the TMM normalized score categories in dba.count?

Trying to figure out which of the these categories makes most sense for my ATAC-seq data.

Thanks!

The score used for dba.count() is independent of the normalization method used when doing an analysis using dba.analyze(). If the analysis method is DBA_EDGER, the analyzed data will be normalized using TMM regardless. The dba.count() score is only used for the unanalyzed, "global" binding matrix, and not the analysis results used for reporting and plotting when a contrast (and optionally a method) is specified.

-Rory