[BioC] Normalizing a dataset from GEO to suit a classifier trained on another dataset

[Matthew McCall]

Nathan,

Take a look at the frma package and paper:
McCall MN, Bolstad BM, and Irizarry RA* (2010). Frozen Robust
Multi-Array Analysis (fRMA), Biostatistics, 11(2):242-253.

Best,
Matt



On Sun, Apr 14, 2013 at 10:40 AM, Nathan Skene [guest]
<guest at bioconductor.org> wrote:
>
> Hi,
>
> I have a built a classifier on a set of my own microarray data.
>
> I would like to be able to show that it works on new data, by taking some from GEO (same tissue, same array platform etc) and classifying that.
>
> However, the probe values in the new datasets are offset compared to those in my original dataset, presumably because of differences in how they were normalised.
>
> Is there a way to normalize datasets taken from GEO so that they are normalized with respect to an existing dataset?
>
> Thanks
>
>
>  -- output of sessionInfo():
>
> -
>
> --
> Sent via the guest posting facility at bioconductor.org.
>
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Matthew N McCall, PhD
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