export.DMRInfo {methyAnalysis} | R Documentation |
Output the DMR (Differentially Methylated Region) data information
export.DMRInfo(DMRInfo.ann, methyData = NULL, savePrefix = "")
DMRInfo.ann |
The annotated DMR information outputted by annotateDMRInfo. |
methyData |
Methylation data information in MethyGenoSet or MethyLumiM class |
savePrefix |
The prefix added to the output file names. |
This function basically save the annotated DMR information as text .csv files.
results files.
Pan Du
data(exampleMethyGenoSet) sampleType <- colData(exampleMethyGenoSet)$SampleType ## Do differential test allResult <- detectDMR.slideWin(exampleMethyGenoSet, sampleType=sampleType, testMethod='ttest') ## Identify the DMR (Differentially Methylated Region) by setting proper parameters. ## Here we just use default ones allDMRInfo <- identifySigDMR(allResult) ## Annotate significant DMR info if (require(TxDb.Hsapiens.UCSC.hg19.knownGene)) { DMRInfo.ann <- annotateDMRInfo(allDMRInfo, 'TxDb.Hsapiens.UCSC.hg19.knownGene') export.DMRInfo(DMRInfo.ann, savePrefix='testExample') }