Hello,

I am interested in determining the differential expression in E-GEOD-37442. Does anyone know of some code that I can adapt to the analysis of this array. In the array description it says A-GEOD-15470 - Agilent-024835 CDv2_0_1 [ProbeName version] 

Thank you so much!

Sure. There is a metric ton of code in the limma User's guide that you could adapt.

I have read the manual for Limma but I am not sure of the specifications for E-GEOD-37442. I have the following line of code:

SDRF <- read.delim("E-GEOD-37442.sdrf.txt",check.names=FALSE,stringsAsFactors=FALSE)

but i am not sure what are the specifications for read.maimages? I have this line for the Limma manual but I am not sure how I can adapt it for E-GEOD-37442.

x <- read.maimages(SDRF[,"Array Data File"],source="agilent",green.only=TRUE)

Also, would you know if there are microarray analysis services provided somewhere? I am worried I can't learn all of the tools within a reasonable time frame.