do_diff_testing_via_MAST: Calculates differentially expressed genes from single cell...

In baumbachlab/keypathwayminer-R: KeyPathwayMiner R-Package

Calculates differentially expressed genes from single cell object

Description

Calculates differentially expressed genes from single cell object

Usage

do_diff_testing_via_MAST(
  sc_obj,
  covarariate,
  referenceGroup,
  saveSummary = TRUE,
  summaryName = NULL,
  designFormula = NULL
)

Arguments

sc_obj	single cell object of type seurat, singleCellAssay or singlCellExperiment
covarariate	colname of metadata with groups for differential expression
referenceGroup	reference/control group
saveSummary	if TRUE saves the result of the differential analysis as a .rds file
summaryName	name of the rds file if saveSummary=TRUE
designFormula	string which will be used as formula in MAST's zlm function

Value

data.frame of differential expression analysis results

baumbachlab/keypathwayminer-R documentation built on June 29, 2023, 11:21 a.m.