CNOGpro (version 1.1)

normalizeGC: Normalization of read count data by GC content

Description

Manipulates count values from windows of comparatively high or low GC content so as to bring the counts more in line with those from median GC-content windows.

Usage

normalizeGC(experiment)

Arguments

experiment

experiment An object of class CNOGpro.

Value

An object of class CNOGpro, containing a numeric vector CorrReadsprWindow.

Details

Implements the Yoon et al. (2009) normalization scheme.

References

Yoon,S. et al. (2009) Sensitive and accurate detection of copy number variants using read depth of coverage. Genome Research, 19, 1586--1592.

Examples

data(carsonella)
carsonella_normalized <- normalizeGC(carsonella)
plotCNOGpro(carsonella_normalized)