greetings to the members. I have to analyse miRNA (microarray data). i have downloaded the .CEL.gz files. however, i am unable to import them using affy for background normalisation. I am not sure which part have i missed. Kindly guide me Thanks a lot!
This is the R script i have used
library(affy)
#path to load CEL files
mirna <- "home/eshwari/Documents/GSE120356"
list.celfiles()
#import the files
datafiles <- ReadAffy(celfile.path = mirna)
this is the error I keep getting.
(Error in read.celfile.header(as.character(filenames[[1]])) : Is /home/eshwari/Documents/GSE120356/GSM3398822_N1.CEL.gz really a CEL file? tried reading as text, gzipped text, binary, gzipped binary, command console and gzipped command console formats)
can post the output from
file /home/eshwari/Documents/GSE120356/GSM3398822_N1.CEL.gz
in ubuntu/gnu-linux? If you have access to md5sum of the cel.gz, try using them.I tried opening the file but it does'nt open in my system. And i need to analyse using R scripts only