A package that provides classes for holding and manipulating Illumina methylation data. Based on eSet, it can contain MIAME information, sample information, feature information, and multiple matrices of data. An ``intelligent'' import function, methylumiR can read the Illumina text files and create a MethyLumiSet. methylumIDAT can directly read raw IDAT files from HumanMethylation27 and HumanMethylation450 microarrays. Normalization, background correction, and quality control features for GoldenGate, Infinium, and Infinium HD arrays are also included.

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Methylumi classification

Methylumi specifications

Software type:
Package
Restrictions to use:
None
Operating system:
Unix/Linux, Mac OS, Windows
License:
GNU General Public License version 2.0
Stability:
Stable
Interface:
Command line interface
Biological technology:
Illumina
Programming languages:
R
Computer skills:
Advanced

Publications

  • (Triche et al., 2013) Low-level processing of Illumina Infinium DNA Methylation BeadArrays. Nucleic acids research.
    Published on: 2013 Apr 01
    PMID: 23476028

Link to literature

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