Files in haowulab/TRESS

Toolbox for mRNA epigenetics sequencing analysis

R/BgMethylevel.R R/CallCandidates.R R/CallDMRs.paramEsti.R R/CallPeaks.multiRep.R R/CallPeaks.oneRep.R R/CallPeaks.paramEsti.R R/ChisqTest.R R/CoefName.R R/CovR.parallel.R R/DMRInfer.R R/DivideBins.R R/EstiMu.R R/EstiPhi.IterativeUpdate.R R/EstiPhi.JointUpdate.R R/EstiPhi.R R/EstiPhi.SingleUpdate.R R/EstiVarofMu.R R/JProfileMLE.phitheta.R R/MLE.parallel.R R/NewtonRaphson.R R/PostPhi.NBlogN.R R/Posterior.phi.R R/ShowOnePeak.R R/TRESS_DMRfit.R R/TRESS_DMRtest.R R/TRESS_peak.R R/Uniroot.truncNsd.R R/WaldTest.R R/adjustHessian.R R/defineSrand.R R/exonBins.byTXDB.R R/filterRegions.R R/findBumps.R R/findRegion.R R/getInfer.R R/getLogFC.R R/getPeakCounts.R R/getStrand.R R/getWinCounts.R R/iCovR.R R/iMLE.R R/meRatio.R R/mix.2norm.onlysd.R R/mySmooth.R R/mylogit.R R/mysolve.R R/profileMLE.coef.R R/profileMLE.phi.R R/profileMLE.theta.R R/read.BAM.R README.md inst/script/exampleData.R man/Basal.Rd man/CallCandidates.Rd man/CallDMRs.paramEsti.Rd man/CallPeaks.multiRep.Rd man/CallPeaks.oneRep.Rd man/CallPeaks.paramEsti.Rd man/CoefName.Rd man/DMRInfer.Rd man/DMR_M3vsWT.Rd man/DMR_SixWeekvsTwoWeek.Rd man/DivideBins.Rd man/ShowOnePeak.Rd man/TRESS_DMRfit.Rd man/TRESS_DMRtest.Rd man/TRESS_peak.Rd man/filterRegions.Rd man/findBumps.Rd man/meRatio.Rd vignettes/TRESS.Rmd