[BioC] Hello, reading large Affymetrix microarrays .CEL files

Steve Lianoglou lianoglou.steve at gene.com
Tue Aug 27 21:11:06 CEST 2013


On Tue, Aug 27, 2013 at 11:57 AM, Nehme Hachem <hachemn at gmail.com> wrote:
> Dear all,
> I have a large set of Afymetrix .CEL files (around 8000) and I would like
> to use justRMA()
> function but it doesn't work!

Please provide the code you used to attempt this, as well as the error
you get when you attempted it ("it doesn't work" is not very
informative), as well as the output of `sessionInfo()` so that we know
what package versions (plus system architecture) you are running.

> It would be wonderful if someone provides me a part of code or Bioconductor
> package that can help normalizing my large set. I want to create an
> ExpressionSet object without Affybatch.

Please try searching the list archives for previous recommendations
for solutions to this problem, as it is discussed quite often. Perhaps
most recently here:



Steve Lianoglou
Computational Biologist
Bioinformatics and Computational Biology

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