DOI: 10.18129/B9.bioc.skewr    

This package is for version 3.10 of Bioconductor; for the stable, up-to-date release version, see skewr.

Visualize Intensities Produced by Illumina's Human Methylation 450k BeadChip

Bioconductor version: 3.10

The skewr package is a tool for visualizing the output of the Illumina Human Methylation 450k BeadChip to aid in quality control. It creates a panel of nine plots. Six of the plots represent the density of either the methylated intensity or the unmethylated intensity given by one of three subsets of the 485,577 total probes. These subsets include Type I-red, Type I-green, and Type II.The remaining three distributions give the density of the Beta-values for these same three subsets. Each of the nine plots optionally displays the distributions of the "rs" SNP probes and the probes associated with imprinted genes as series of 'tick' marks located above the x-axis.

Author: Ryan Putney [cre, aut], Steven Eschrich [aut], Anders Berglund [aut]

Maintainer: Ryan Putney <ryanputney at>

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


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PDF R Script An Introduction to the skewr Package
PDF   Reference Manual


biocViews DNAMethylation, Preprocessing, QualityControl, Software, TwoChannel
Version 1.18.0
In Bioconductor since BioC 3.1 (R-3.2) (5 years)
License GPL-2
Depends R (>= 3.1.1), methylumi, wateRmelon, mixsmsn, IlluminaHumanMethylation450kmanifest
Imports minfi, S4Vectors(>= 0.19.1), RColorBrewer
Suggests GEOquery, knitr, minfiData
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