ClassifySGS: ClassifySGS

In bimberlabinternal/OOSAP: OHSU-ONPRC Single-cell Analysis Package

Description

This will classify cells in a seurat object using a variant of Seurat's AddModuleScore

Usage

ClassifySGS(
  seuratObj,
  geneList = NULL,
  geneSetName = NULL,
  saveFilePath = NULL,
  doPlot = T,
  positivityThreshold = NULL
)

Arguments

geneList	A character vector of the genes to test
geneSetName	A name to use for this gene list. This will be used in the header of the dataframe
saveFilePath	If provided, the dataframe will be saved here
doPlot	If true, a QC plot will be created
positivityThreshold	If provided, a boolean column will be added to the dataframe scoring cells as positive or negative, depending on if their score is greater than this threshold

Value

A dataframe with the results per cell

bimberlabinternal/OOSAP documentation built on Jan. 19, 2021, 2:47 a.m.