## ----style, echo=FALSE, results="asis", message=FALSE-------------------- knitr::opts_chunk$set(tidy =false，警告= false，消息= false）## ----库，echo = false，结果='hide'，messages = false -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------（MINFI）## ---------------------------------------------------------------------------------------------------------------------------- require(funtooNorm) require(minfiData) # We randomly assign cell types for the purpose of this example.pData(RGsetEx)$cell_type <- rep(c("type1","type2"),3) mySampleSet=fromRGChannelSet(RGsetEx) ## ---------------------------------------------------------------------------------------------------------- origbeta <-getRawbeta（mysampleset）origbeta [1：3,1：3] ## ------------------------------------------------------------------------------------------------------------------------------------- plotValidationGraph(mySampleSet, type.fits =“ pcr”）## ----标准化数据---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- mysampleset = funtoonorm（mySampleSet，type.fits =“ pcr”，ncmp = 3）mysampleset normbeta <-getnormbeta（mysampleset）normbeta [1：3，1：3，1：3] ## ------------------------------------------------------------------------------------------------------------------------- #Technical Replicates是虚构的，仅出于演示目的。协议（origbeta，c（1：5,5））＃m在标准化协议之前的数据（normbeta，c（1：5,5））＃m表示归一化后的数据## -----------------------------------------------------------------------------------------------------------------库（MinFi）age = pdata（rgsetex）$ age dmp = dmpfinder（getnormm（mySampleSet），age，type =“ continule”）dmp [1：2，]＃，＃＃----------------------------------------------------------------------------------------------------- phenoData <- pData(RGsetEx)[,c("age","sex","status")] genomerange <- getGRanges(mySampleSet) grs <- GenomicRatioSet(gr=genomerange, Beta=normBeta, preprocessMethod="funtooNorm", metadata=list(pData=phenoData)) grs ## ----echo=FALSE---------------------------------------------------------- sessionInfo()