No "integrated" assay after running CCA integration on an SCTransformed object

[NicoHadas]

Hello,

I have ran both SCTransform and CCA Integration on my objec but cannot find an "integrated" assay.

I have followed the Perform integration with SCTransform-normalized datasets exactly.

Please advise.

[SMP7UC]

Hi,

I am also following the same link to perform CCA integration, and I am also not finding the "integrated" assay as earlier.
I am also confused about re-clustering the subset of cells taken from a seurat object. The following is the code I use for re-clustering. Any suggestions in this regard will be very helpful.

neu_rcl = Fil_neu %>%
RunPCA() %>%
FindNeighbors(reduction = "pca", dims = 1:30) %>%
FindClusters() %>%
RunUMAP(dims = 1:30)