OperaMate (version 1.4.0)

cellSigAnalysis: Hits function analysis

Description

Performs function analysis using gProfileR

Usage

cellSigAnalysis(object, genemap, organism, type = c("High", "Low"), file = NULL, ...)

Arguments

object

a cellData object

genemap

a data frame, the well-gene specification table

organism

organism name.

type

include both high and low expressed hits or one of them.

file

the filename of the enrichment table (default: disabled)

...

the arguments of gprofiler.

Value

a data frame of the functional report from gProfiler

Details

genemap must include colnames "Barcode","Well","GeneSymbol". organism name can be referred to g:Profiler tool. For example, human: hsapiens, mouse: mmusculus.

Examples

data(demoCell)
genemap <- read.csv(file.path(system.file("Test", package = "OperaMate"),
"demoData", "genemap.csv"), stringsAsFactors = FALSE)
chart <- cellSigAnalysis(oneCell, genemap, organism = "mmusculus")
head(chart)