Really cool tool and web portal! I was trying to understand how you have been building references for Azimuth. A lot of what you did makes sense to me, but I stumbled across a line in the human BMMC reference script indicating an additional normalization step after individual batches had already been scTransformed.
Hi!
Really cool tool and web portal! I was trying to understand how you have been building references for Azimuth. A lot of what you did makes sense to me, but I stumbled across a line in the human BMMC reference script indicating an additional normalization step after individual batches had already been scTransformed.
See: https://github.com/satijalab/azimuth-references/blob/536fcbbf1a93f20a9f185d05b8d6cd456f3b5835/human_bonemarrow/scripts/integrate.R#L58
I was wondering why the second normalization step is needed here?
Thanks a lot!