[BioC] Mu11KsubA and Mu11KsubB

[Simon Lin]

Hi, Yen Lin:

The error message is caused by the non-matching CDF/CEL file (A/B array).

There is a logical reason to keep them separately analyzed. The major
argument is the hybridization condition and thus normalization
considerations.

After normalization and RMA gene indexing, please feel free to combine them.

I also tried to use unigene ID, instead of AffyID to combine the A/B array.
It works.

Simon

=================================================
  Simon M. Lin, M.D.
  Manager, Duke Bioinformatics Shared Resource
  Assistant Research Professor, Biostatistics and Bioinformatics
  Box 3958, Duke University Medical Center
  Durham, NC 27710
  Ph: (919) 681-9646 FAX: (919) 681-8028
  Lin00025 (at) mc.duke.edu
  http://dbsr.duke.edu
=================================================

Subject: [BioC] Mu11KsubA and Mu11KsubB
To: bioconductor at stat.math.ethz.ch
Message-ID: <400F6440.36761406 at stanford.edu>
Content-Type: text/plain; charset=x-user-defined

Hi,

I'm working on some Affy mice chips, they are Mu11KsubA and Mu11KsubB.
The data on the chips are divided into two parts (maybe the gene list is
long), so when I try to read the data to R, it gave me an error message
saying
"Error in initialize (value,....) : Cel file C:/~/1DE_Mu11KB.CEL does
not seem to be of Mu11KsubA type. Is there a way I can combine the
data into one, instead of analyzing two parts separately?

Thanks.

Yen Lin