[aroma.affymetrix] getChipEffectSet: entire transcript or exon by exon

2012-03-02 Thread hiberbear
Hi everyone: I am running aroma.affymetrix on human exon array (HuEx-1_0-st-v2). I find a confusing thing about the gene summary: trFit is identical to ExFit. My understanding is that if mergeGroups=TRUE, I may get a single value for each transcript. for every sample, if mergeGroups=FALSE, I

[aroma.affymetrix] Re: read CEL file

2012-03-02 Thread Henrik Bengtsson
Hi. On Fri, Mar 2, 2012 at 8:52 AM, Yu Song ys...@oakland.edu wrote: Dear Mr.Bengtsson, I am trying to create a data containing the unitName, chromosome and position from the output CEL of preprocessing. What type of CEL files? What type of preprocessing? /H Is there a certain command to