[BioC] AgiMicroRna and readMicroRnaFE

Paulo Nuin nuin at genedrift.org
Sat Aug 28 18:31:50 CEST 2010

Hi everyone

I'm trying to read Agilent miRNA data with AgiMicroRna and readMicroRnaFE, but I'm finding an error due to some different column names. My data has this info

miRNA_105_Dec08 (Read Only)	21-Nov-2008 12:14	Agilent Technologies Scanner G2505C US45102857

and the error on the command

dd.micro <- readMicroRnaAFE(targets.micro, verbose = T)


Error in readGenericHeader(fullname, columns = columns, sep = sep) : 
  Specified column headings not found in file

I dug a bit and found that 3 columns are missing on the input files: 


My question: is there a workaround this? I don't see column headers that would be similar to the three missing. Can I just change some column names to the ones the function is expecting?

Any help is appreciated.

Thanks in advance

Paulo Nuin

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