[BioC] nimblegen ChIP to chip array

[ping zheng]

Hello everyone,

I have never analyzed microarray data, I would like to use
Biochonductor to analyze data provided by nimblegen. Method used was ChIP to 
chip
array and data is provided in the following format

*_ratio.gff, *_pair.txt, *_report.tab

How can I use normalizeBetweenArrays or Loess function for the data
provided by nimblegen in the format specified above?
Can someone tell me what type of data is required for applying these
functions?
Does the data format vary from company to company like nimblegen and
affymetrix?

Thank you for your time and help


Ping Zheng

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