
 Dear sir or madam,
I am trying to import gene expression data(GDS or GSM) with getGEO function 
in R with the following command:
gds <- 
getGEO(filename=system.file("extdata/GDS4457.soft.gz",package="GEOquery"))
Unfortunately I get the error:
Error in read.table(con, sep = "\t", header = FALSE, nrows = nseries) : 
  invalid 'nlines' argument
In addition: Warning messages:
1: In file(fname, "r") :
  file("") only supports open = "w+" and open = "w+b": using the former
2: In file(con, "r") :
  file("") only supports open = "w+" and open = "w+b": using the former
3: In file(fname, "r") :
  file("") only supports open = "w+" and open = "w+b": using the former

Would you please advise me what to do?
Regards
Nazanin Hosseinkhan
 

 

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