In the vignette, the authors talk about the normalization of microarray data from .CEL files to gene expression, followed by quality control. However, it is unclear how the normalization is done, including in their article in NAR. Does anyone know how this is done?

Thanks in advance.

R

In the vignette it says this on page 6:

The loadMAdata function will normalize the raw data (by default using the plier algorithm)