Seurat (version 3.1.1)

CellCycleScoring: Score cell cycle phases

Description

Score cell cycle phases

Usage

CellCycleScoring(object, s.features, g2m.features, set.ident = FALSE,
  ...)

Arguments

object

A Seurat object

s.features

A vector of features associated with S phase

g2m.features

A vector of features associated with G2M phase

set.ident

If true, sets identity to phase assignments

...

Arguments to be passed to AddModuleScore Stashes old identities in 'old.ident'

Value

A Seurat object with the following columns added to object meta data: S.Score, G2M.Score, and Phase

See Also

AddModuleScore

Examples

# NOT RUN {
# pbmc_small doesn't have any cell-cycle genes
# To run CellCycleScoring, please use a dataset with cell-cycle genes
# An example is available at http://satijalab.org/seurat/cell_cycle_vignette.html
pbmc_small <- CellCycleScoring(
  object = pbmc_small,
  g2m.features = cc.genes$g2m.genes,
  s.features = cc.genes$s.genes
)
head(x = [e-mail])
# }
# NOT RUN {
# }