I am relatively new to preprocessing microarray data, and am trying to analyze the GEO dataset "GSE56045". I downloaded the supplementary RAW files to manipulate with lumi, however the file format does not seem to be compatible with the lumiR function. The header of the RAW file is as follows, if this helps:
? Illumina, Inc.
Number of Probes 47231
Number of Controls 887
When i call the lumiR function, the error message is:
"Error in gregexpr("\t", dataLine1)[] : subscript out of bounds"
This confuses me because the file appears to be a tab separated document.
Is this data in a format readable by lumi? should I use a different package instead?