betaqn-exprmethy450-methods {wateRmelon} | R Documentation

## Calculate normalized betas from exprmethy450 of Illumina 450K methylation arrays

### Description

Quantile normalize betas from exprmethy450 objects

### Arguments

`bn` | An exprmethy450 object.
`fudge` | value added to total intensity to prevent denominators close to zero when calculating betas

### Details

betaqn quantile normalizes betas

### Value

exprmethy450 object of the same shape and order as bn.

### methods

betaqn( bn ) fuks( bn )

### Author(s)

Leonard.Schalkwyk@kcl.ac.uk

### References

[1] Pidsley R, Wong CCY, Volta M, Lunnon K, Mill J, Schalkwyk LC: A data-driven approach to preprocessing Illumina 450K methylation array data (submitted)

[2] Dedeurwaerder S, Defrance M, Calonne E, Sotiriou C, Fuks F: Evaluation of the Infinium Methylation 450K technology . Epigenetics 2011, 3(6):771-784.

[3] Touleimat N, Tost J: Complete pipeline for Infinium R Human Methylation 450K BeadChip data processing using subset quantile normalization for accurate DNA methylation estimation. Epigenomics 2012, 4:325-341

[4] Maksimovic J, Gordon L, Oshlack A: SWAN: Subset quantile Within-Array Normalization for Illumina Infinium HumanMethylation450 BeadChips. Genome biology 2012, 13(6):R44

[Package wateRmelon version 1.24.0 Index]