DOI: 10.18129/B9.bioc.normalize450K    

This is the development version of normalize450K; for the stable release version, see normalize450K.

Preprocessing of Illumina Infinium 450K data

Bioconductor version: Development (3.17)

Precise measurements are important for epigenome-wide studies investigating DNA methylation in whole blood samples, where effect sizes are expected to be small in magnitude. The 450K platform is often affected by batch effects and proper preprocessing is recommended. This package provides functions to read and normalize 450K '.idat' files. The normalization corrects for dye bias and biases related to signal intensity and methylation of probes using local regression. No adjustment for probe type bias is performed to avoid the trade-off of precision for accuracy of beta-values.

Author: Jonathan Alexander Heiss

Maintainer: Jonathan Alexander Heiss <jonathan.heiss at>

Citation (from within R, enter citation("normalize450K")):


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PDF R Script Normalization of 450K data
PDF   Reference Manual


biocViews DNAMethylation, MethylationArray, Microarray, Normalization, Preprocessing, Software, TwoChannel
Version 1.27.0
In Bioconductor since BioC 3.3 (R-3.3) (6.5 years)
License BSD_2_clause + file LICENSE
Depends R (>= 3.3), Biobase, illuminaio, quadprog
Imports utils
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