[BioC] using vsn to normalize protein array data

[Wolfgang Huber]

Sep/26/11 4:49 PM, Jabez Wilson scripsit::
> I'd like to use the vsn package to normalize protein array data, as
> described in "Felgner et al 2009 PNAS 106:13499-13504 A burkholderia
> psuedomallei protein microarray reveals serodiagnostic and
> cross-reactive antigens". I have a set of "positive" and "negative"
> samples labelled with Cy3 and read in bluefuse, so I only have one
> "channel". I have read the "vsn" and "limma" documentation but the
> examples they give only seem to refer to two-color arrays and MA
> values. Can anyone suggest how I should progress?
>

Dear Jabez

have a look at section 3 of the vsn vignette
(Running VSN on data from multiple arrays - single colour normalisation)

Best wishes
	Wolfgang


Wolfgang Huber
EMBL
http://www.embl.de/research/units/genome_biology/huber