[BioC] Robust Spline Normalization (lumi) - illumina data matrix

Pan Du dupan at northwestern.edu
Wed Jan 30 06:28:18 CET 2008

Hi Sharon,

The "rsn" function in the lumi package accepts either an object of
ExpressionSet class (or inherited class like LumiBatch) or a data matrix. So
you can directly use it. Please read the help of "rsn" function for more
details. You can also try other normalization methods in other packages.


On 1/29/08 5:00 AM, "bioconductor-request at stat.math.ethz.ch"
<bioconductor-request at stat.math.ethz.ch> wrote:

> Message: 6
> Date: Mon, 28 Jan 2008 15:04:08 +0000
> From: Sharon <sharonanandhi at gmail.com>
> Subject: [BioC] Robust Spline Normalization (lumi) - illumina data
> matrix
> To: Bioconductor <bioconductor at stat.math.ethz.ch>
> Message-ID:
> <3709c2370801280704i62c11b6bn5ae79f99ffec20ae at mail.gmail.com>
> Content-Type: text/plain
> Dear all,
> I have an illumina microarray data in a matrix form, ie. simply a AVG
> signal. Since I don't have detection p-values and STDERR values, it is
> difficult for me to make a lumi object. Is it possible to apply RSN on
> matrix format instead of lumi object?
> Thanks in advance.
> Kind regards,
> Sharon
> [[alternative HTML version deleted]]

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