Normalization of 450K data
نویسنده
چکیده
> library(normalize450K) > library(minfiData) ## this package includes some .idat files > library(data.table) > path samples = fread(file.path(path, 'SampleSheet.csv'),integer64='character') > samples[,file:=file.path(path,Sentrix_ID,paste0(Sentrix_ID,'_',Sentrix_Position))] > ## samples$file is a character vector containing the location of the > ## .idat files, but without the suffixes "_Red.idat" or "_Grn.idat" > > raw = read450K(samples$file) > none = dont_normalize450K(raw) ## no normalization > norm = normalize450K(raw)
منابع مشابه
A systematic study of normalization methods for Infinium 450K methylation data using whole-genome bisulfite sequencing data
DNA methylation plays an important role in disease etiology. The Illumina Infinium HumanMethylation450 (450K) BeadChip is a widely used platform in large-scale epidemiologic studies. This platform can efficiently and simultaneously measure methylation levels at ∼480,000 CpG sites in the human genome in multiple study samples. Due to the intrinsic chip design of 2 types of chemistry probes, data...
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