[BioC] log scale in limma package

[Boks, M.P.M.]

Hello all,

I am analysing data of a methylation experiment using golden gate Illumina assay. I use the LIMMA package. Illumina’s beadstudio was used to obtain the normalised data which is a continuous variable (range 0-1). The analysis work out fine, and I am inclined to think the log scale is not essential. However I am not completely sure. My question therefore:

Can the LIMMA package also be used for data that is NOT on a log scale?

Many Thanks,

Marco


MPM Boks, 
Rudolf Magnus Institute of Neuroscience, 
Department of Psychiatry B01.206, University Medical Centre Utrecht, 
PO box 85500, 3508 GA Utrecht, The Netherlands, 
Tel: +31 30 2506370
Fax: +31 30 2505509 
Email: mboks at umcutrecht.nl