Error in obj2 - obj1 : non-conformable arrays

[smk5g5]

Hi,

I keep getting Error in obj2 - obj1 : non-conformable arrays this error when comparing 2 objects. I was wondering why is that and if you can let me know the cause of this error. Thank you!

[sqjin]

@smk5g5 Sorry, I have no idea on this. The best way is to run the source codes line by line and figure out the reason.

[micosacak]

That means the 2 objects have different cell clusters or there are differences in their idents.

in that case you must first create a common idents and lift the sample that is missing it.

example:

group.new = unique(union(levels(cellchat.E14@idents), levels(cellchat.E13@idents)))
cellchat.E14@idents<- liftCellChat(cellchat.E14@idents, group.new)
object.list = list(cellchat.E14, cellchat.E13)
names(object.list) = c("cellchat.E14","cellchat.E13")
cellchat <- mergeCellChat(object.list, add.names = names(object.list), cell.prefix = TRUE)

in case cellchat.E13@idents has missing cluster then you must run

group.new = unique(union(levels(cellchat.E14@idents), levels(cellchat.E13@idents)))
cellchat.E14@idents<- liftCellChat(cellchat.E14@idents, group.new)
cellchat.E13@idents<- liftCellChat(cellchat.E13@idents, group.new)
object.list = list(cellchat.E14, cellchat.E13)
names(object.list) = c("cellchat.E14","cellchat.E13")
cellchat <- mergeCellChat(object.list, add.names = names(object.list), cell.prefix = TRUE)