Files in sesame

Tools For Analyzing Illumina Infinium DNA Methylation Arrays

README.md tests/testthat.R tests/testthat/test_sesamize.R tests/testthat/test_background.R tests/testthat/test_detectionP.R R/GEO.R R/channel_inference.R R/utils.R R/dye_bias.R R/track.R R/SigSetList.R R/controls.R R/age.R R/QC.R R/cell_composition.R R/SigSetMethods.R R/open.R R/simulate_data.R R/deidentify.R R/differential_methylation.R R/visualize.R R/vcf.R R/cnv.R R/sesame.R R/sesamize.R R/snp.R R/fileSet.R R/background_correction.R R/detection.R man/twoCompsEst2.Rd man/SigSet-class.Rd man/diffRefSet.Rd man/print.fileSet.Rd man/getBetas.Rd man/meanIntensity.Rd man/IR-methods.Rd man/chipAddressToSignal.Rd man/as.data.frame.sesameQC.Rd man/probeNames-methods.Rd man/oobG-methods.Rd man/detectionPnegNorm.Rd man/bisConversionControl.Rd man/oobR-replace-methods.Rd man/readFileSet.Rd man/SigSetToRatioSet.Rd man/IG-methods.Rd man/searchIDATprefixes.Rd man/inferSex.Rd man/openSesame.Rd man/predictAgeSkinBlood.Rd man/SNPcheck.Rd man/createUCSCtrack.Rd man/segmentBins.Rd man/mapFileSet.Rd man/getSegment.Rd man/estimateLeukocyte.Rd man/getRefSet.Rd man/qualityMask.Rd man/dyeBiasCorrMostBalanced.Rd man/pval-replace-methods.Rd man/SigSetList-methods.Rd man/IR-replace-methods.Rd man/makeExampleTinyEPICDataSet.Rd man/sesamize.Rd man/noobsb.Rd man/visualizeRegion.Rd man/signalMU.Rd man/BetaValueToMValue.Rd man/oobR-methods.Rd man/SigSetsToRGChannelSet.Rd man/deidentify.Rd man/binSignals.Rd man/inferEthnicity.Rd man/visualizeSegments.Rd man/detectionZero.Rd man/getProbesByRegion.Rd man/inferTypeIChannel.Rd man/II-replace-methods.Rd man/detectionPnegEcdf.Rd man/detectionPnegNormTotal.Rd man/sesameQC.Rd man/ctl-methods.Rd man/SigSetList-class.Rd man/readIDATpair.Rd man/visualizeProbes.Rd man/pval-methods.Rd man/SigSetListFromPath.Rd man/inferSexKaryotypes.Rd man/extra-replace-methods.Rd man/parseGEOSignalABFile.Rd man/getBinCoordinates.Rd man/makeExampleSeSAMeDataSet.Rd man/openSesameToFile.Rd man/totalIntensityZscore.Rd man/topLoci.Rd man/detectionPnegNormGS.Rd man/initFileSet.Rd man/ctl-replace-methods.Rd man/getProbesByGene.Rd man/MValueToBetaValue.Rd man/noob.Rd man/SigSetList.Rd man/extra-methods.Rd man/oobG-replace-methods.Rd man/topSegments.Rd man/subsetSignal.Rd man/dyeBiasCorr.Rd man/predictAgePheno.Rd man/DMR.Rd man/sesame-package.Rd man/IG-replace-methods.Rd man/estimateCellComposition.Rd man/RGChannelSetToSigSets.Rd man/buildControlMatrix450k.Rd man/detectionMask.Rd man/visualizeGene.Rd man/detectionPfixedNorm.Rd man/reIdentify.Rd man/II-methods.Rd man/sliceFileSet.Rd man/getSexInfo.Rd man/cnSegmentation.Rd man/predictAgeHorvath353.Rd man/print.sesameQC.Rd man/DML.Rd man/qualityRank.Rd man/getAFTypeIbySumAlleles.Rd man/getProbesByTSS.Rd man/getNormCtls.Rd man/reopenSesame.Rd man/detectionPoobEcdf.Rd man/formatVCF.Rd man/totalIntensities.Rd man/show-methods.Rd man/SigSetListFromIDATs.Rd man/dyeBiasCorrTypeINorm.Rd inst/doc/QC.Rmd inst/doc/sesame.Rmd inst/doc/minfi.R inst/doc/largeData.R inst/doc/QC.R inst/doc/largeData.Rmd inst/doc/sesame.R inst/doc/minfi.Rmd vignettes/QC.Rmd vignettes/sesame.Rmd vignettes/largeData.Rmd vignettes/minfi.Rmd