nimblegenNorm {Ringo}R Documentation

Function to compute scaled log-ratios

Description

This function compute the scaled log-ratios from raw probe intensities, as done by Nimblegen for normalization.

Usage

nimblegenNorm(myRG, ...)

Arguments

myRG Object of class RGList
... further arguments passed on to tukey.biweight

Details

Nimblegen provides scaled log-ratios as normalized values for the probes. log.ratio = log2(R)-log2(G) scaled.ratio = log.ratio - tukey.biweight(log.ratio)

Value

Return an MAList, with the M slot of the list holding the scaled log ratios.

Author(s)

Joern Toedling toedling@ebi.ac.uk

See Also

tukey.biweight


[Package Ringo version 1.0.0 Index]