[aroma.affymetrix] Re: use a few normal samples as the reference set

2009-02-02 Thread Henrik Bengtsson
Hi. On Mon, Feb 2, 2009 at 1:32 PM, qichengm qicheng...@gmail.com wrote: Hi, Thanks for your reply. I have 12 samples in total. If cesN contains all 12 samples: cesNN - extract(cesN, 1:4) cesNT - extract(cesN, 5:12) Could I run GladModel as follows ? glad -

[aroma.affymetrix] Re: use a few normal samples as the reference set

2009-01-29 Thread Pierre Neuvial
Hi, I guess that if cesN is your chip-effect set (containing all 8 arrays), and if 1:4 are the normal samples you want to do cesNN - extract(cesN, 1:4) ceR - getAverageFile(cesNN, verbose=verbose) and then use this reference as you did before. Does this help ? Cheers, Pierre. On Tue, Jan