Score cell cycle phases
Score cell cycle phases
CellCycleScoring( object, s.features, g2m.features, ctrl = NULL, set.ident = FALSE, ... )
object |
A Seurat object |
s.features |
A vector of features associated with S phase |
g2m.features |
A vector of features associated with G2M phase |
ctrl |
Number of control features selected from the same bin per
analyzed feature supplied to |
set.ident |
If true, sets identity to phase assignments Stashes old identities in 'old.ident' |
... |
Arguments to be passed to |
A Seurat object with the following columns added to object meta data: S.Score, G2M.Score, and Phase
AddModuleScore
## Not run:
data("pbmc_small")
# 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 = pbmc_small@meta.data)
## End(Not run)Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.