cdpolt

So far as I can tell, any further downstream operations also acts on layers... so it is not useful to store raw counts there since they will just be modified...

@gtca Yes I now see the point about explicit copying preventing the further modification, thanks, that's perfect

@giovp I am also getting this Key Error pointing at this line in the sq.read.nanostring function, Squidpy v1.2.2 I'm wondering whether this actually has something to do with the files...

Wait, yeah, this is probably an issue with the files provided by Nanostring. I just checked in /5 Raw Data/RunXXXX/CellComposite, CellLabels, etc. contain the wrong FOVs (from another slide of...

@giovp it is a dataset we generated from Nanostring Tech Access Program (if you think it would be helpful we can try figure out a way I can share some...