[BioC] robustspline method for within arrays normalisation

[Muller, Pie]

Dear Gordon,

Apologies should I have missed that this topic has already been discussed in the forum. We are using a small scale, custom made array containing 1760 features (440 probes in four replicates). Currently I am using the "loess" function in normalizeWithinArrays() for normalisation. I was wondering whether perhaps the "robustspline" function would be more appropriate but I am somewhat unclear what the differences between the two methods are and whether it would be suitable at all for our small scale arrays. Is there any more information available on that method other than already in the Limma user's guide?

Thanks,
Pie

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Dr Pie Müller
Vector Group
Liverpool School of Tropical Medicine
Pembroke Place
Liverpool
L3 5QA
UK

Tel +44(0) 151 705 3225
Fax +44(0) 151 705 3369
http://www.liv.ac.uk/lstm