doKEGGAnalysis: doKEGGAnalysis

In uebvhir/BasicP4microArrays: Functions to create and run simple-to-complex microarray analysis pipeline

Description

Function to interate with KEGGAnalysis

Usage

doKEGGAnalysis(KEGGPar)

Arguments

KEGGPar

List object that contains the parameters needed to carry out the analysis.

Value

KEGGResult

Examples

## Not run: 
KEGGParsList <- list()
KEGGPar <- list(fitFileName = "fit.Rda",
               whichContrasts = 1:3,
                comparisonName = "Estudi",
                outputDir = "./ResultsDir",
                anotPackage = "org.Hs.eg",
                organisme = "mmu",
                my.IDs = "entrezTable",
                addGeneNames = TRUE,
                fileOfLinks = linksFileName,
                fitMain = NULL,
                cutoffMethod = "unadjusted",
                P.Value.cutoff = rep(0.01, length(wCont)),
                pvalKEGGterms = 0.05,
                minNumGens = 0)

KEGGParsList <- add2parsList (KEGGParsList, KEGGPar)


for(i in 1:length(KEGGParsList))
{
  KEGGList <- BasicP::doKEGGAnalysis(KEGGParsList[i])
}

## End(Not run)

uebvhir/BasicP4microArrays documentation built on Nov. 5, 2019, 11:03 a.m.