X and Y variables : Reliability test

[AlexisFon]

Hi,

I have two questions :

1. How can we use single cell data normalized with SCT ? I have the following error :
   Error in as.matrix(sc_dataset@assays$RNA@data) : no slot of name "data" for this object of class "Assay5"
   and if i replace in the code sc_dataset@assays$RNA@data, by sc_dataset@assays$SCT@data, I have 0 cells identified, no matter the alpha value.

2. I perform SCISSOR analysis on my data (with classic RNA assay) and want to do the reliability test. However, I don't know what I have to put instead X and Y variables in the function : result2 <- reliability.test(X, Y, network, alpha = 0.05, family = "binomial", cell_num = numbers, n = 50, nfold = 10).

Does someone have the answer to these questions ?

[BioWalking]

Q1.Maybe you can try "scedata[["RNA"]] <- as(scedata[["RNA"]], "Assay")"

[Namuhan33]

Q2 if you load the workspace that's been save from scissor function, X and Y are within it