computeLimmaDiffExpr-ToxicoSet-method: Conduct differential expression analysis using the limma R...

In bhklab/ToxicoGx: Analysis of Large-Scale Toxico-Genomic Data

Conduct differential expression analysis using the limma R pacakge

Description

WARNING: This function can take a very long time to compute!

Usage

## S4 method for signature 'ToxicoSet'
computeLimmaDiffExpr(object, buildTable = TRUE)

Arguments

object	A ToxicoSet object with a molecular profile named 'rna'
buildTable	logical Should the result of the eBayes function from limma be assembled into a data.table containing the result along with the gene, compound and durations names. Default it TRUE, otherwise this function with return the object produced by eBayes.

Value

A data.table containing the results the limma differential expression analysis comparing control vs each dose level for each compound within each duration.

Examples

if (interactive()) {
  data(TGGATESsmall)
  analysis <- computeLimmaDiffExpr(TGGATESsmall)
}

bhklab/ToxicoGx documentation built on March 18, 2023, 6:44 a.m.