Entering edit mode
Hi everyone!
I need to read in .gpr files downloaded from GEO. I cant get either read.maimages {limma} or read.GenePix {marray} working. Where am I wrong? Thank you inn advance.
files= dir()
files= files [grep(files, pattern = '*.gpr$')]
library (limma) #1
library (marray) #2
data= read.maimages(files, green.only=T, columns= list(c('F532 Median','B532 Median')))
data= read.maimages(files, green.only=T,source='genepix')
data= read.GenePix (files, name.Gf='F532 Median', name.Gb = 'B532 Median')
Well, the first call to
read.maimages()couldn't possibly work, becausecolumnsalways has to be a list with named components (as the help page says!). Perhaps you intendedcolumns = list(Gf = "F532 Median", Gb = "B532 Median").Anyway, please tell us what the error messages were. Also, which GEO series are you trying to read?