Feature Request (Background RNA Counts in RowData)

[sanjayrsrivatsan]

I want to request a feature that adds ambient RNA counts per gene to the rowData of the output CDS object.

I am imaging that a minimum UMI cutoff can be used to define background RNA and gene expression counts from these ambient RNA molecules can be summed to create a vector of background gene expression counts, and finally added to the rowData of the CDS.

For instance, if the UMI cutoff is set to 1 UMI, all of the counts from "cells" that have 1 UMI are summed across all genes to define a background RNA set.