mod_ora: # Run module overrepresentation analysis

Description Usage Arguments Value Examples

Description

This function was modified from the CEMiTool package. Chunks of code were retained "as is"

Usage

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mod_ora(fc, gmt, verbose = FALSE)

## S4 method for signature 'fcoex'
mod_ora(fc, gmt, verbose = FALSE)

Arguments

fc

A fcoex object.

gmt

A gmt file with gene sets for ora analysis

verbose

Controls verbosity. Defaults to FALSE.

Value

A fcoex object containing over-representation analysis data

Examples

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data("fc")
gmt_fname <- system.file("extdata", "pathways.gmt", package = "CEMiTool")
gmt_in <- pathwayPCA::read_gmt(gmt_fname)
fc <- mod_ora(fc, gmt_in)

fcoex documentation built on Nov. 8, 2020, 6:45 p.m.