genkme {wateRmelon} | R Documentation

## Internal functions for genotype-based normalization metrics

### Description

genkme - genotype calling with 1d k-means

genkus - apply genkme to available SNPs

getsnp - grep the rs-numbered probes

gcose - calculate between-sample SNP standard error

gcoms - calculate between-sample SNP mean-squared deviation

### Usage

    genkme(y, peaks = c(0.2, 0.5, 0.8))

### Arguments

`y` | a vector or matrix of numeric values (betas, between 0 and 1)
`peaks` | initial values for cluster positions

### Details

see `genki`

### Value

see `genki`

### Author(s)

Leonard.Schalkwyk@kcl.ac.uk

### References

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

[Package wateRmelon version 1.22.1 Index]