i.score {iCellR}

Cell cycle phase prediction

Description

This function takes an object of class iCellR and assignes cell cycle stage for the cells.

Usage

i.score(
  object = NULL,
  data.type = "main.data",
  scoring.List = NULL,
  return.stats = TRUE,
  scoring.method = "tirosh"
)

Arguments

object

A data frame containing gene counts for cells.

data.type

Choose from "raw.data" or "main.data", "imputed.data", default = "main.data".

scoring.List

Genes that are used as a marker for phases.

return.stats

Return the data or object. If FALSE the object would be returned.

scoring.method

Choose from "tirosh (Tirosh, et. al. 2016), mean, sum, gsva, ssgsea, zscore and plage. , default = "tirosh".

Value

The data frame object