Number of cell in SCTramsform()

[Chrisdoan9]

Hi team,

I use a reference data set with around 160,000 cell, so may I know how many cells should I use in this case? Is 40,000 cells good enough? Thank you so much!

allen_reference <- SCTransform(allen_reference, ncells = 40000, verbose = FALSE) %>%
  RunPCA(verbose = FALSE) %>%
  RunUMAP(dims = 1:30)