How to normalize data with single condition?

[bioysu]

Hello,

I created an object with data of single condition and tried to normalized it with ranked.glsf. But main.data is empty. I also tried to normalized it with no.norm. But main.data is still empty. Count you tell me how to fix it?

my.obj <- norm.data(my.obj, norm.method = "ranked.glsf", top.rank = 500) my.obj <- norm.data(my.obj, norm.method = "no.norm")

[rezakj]

2 ways to do this; if you don't want to filter cells:

[email protected] <- [email protected]

And if you want to filter cells:

my.obj <- cell.filter(my.obj,
	min.mito = 0,
	max.mito = 0.05,
	min.genes = 200,
	max.genes = 2400,
	min.umis = 0,
	max.umis = Inf)

And if you don't want to normalize skip the normalization step.

Hope this helps!