Hi, all: I'm trying to read in intensity data in limma package. But I get the following error: > files <- dir(pattern="*\\.gpr") > RG <- read.maimages(files, source="genepix") Error in read.maimages(files, source = "genepix") : Cannot find column heading in image output file I don't know what does this error mean. The gpr files I try to load are from GenePix Pro 4.0.1.17, the wavelength I chose for Cy5/Cy3 are 647/546. Do I need to specify these information and How? Thanks, Hua [[alternative HTML version deleted]]

At 07:28 AM 3/10/2003, Hua Weng wrote: >Hi, all: > >I'm trying to read in intensity data in limma package. But I get the >following error: > > > files <- dir(pattern="*\\.gpr") > > RG <- read.maimages(files, source="genepix") >Error in read.maimages(files, source = "genepix") : > Cannot find column heading in image output file > >I don't know what does this error mean. The gpr files I try to load are >from GenePix Pro 4.0.1.17, the wavelength I chose for Cy5/Cy3 are 647/546. >Do I need to specify these information and How? Yes you do. Your wavelengths are not the usual so you need to specify them: RG <- read.maimages(files, columns=list(Rf = "F647 Mean", Gf = "F546 Mean", Rb = "B647 Median", Gb = "B546 Median") Gordon >Thanks, >Hua