Hi,

I would think so (at least I did it with 450 K data). Or just apply your
method of choice for variance filtering (IQR or sd) to each probe and
filter out your percentage of choice. Maybe plot a histogram of the
variance measure to see it's distribution and see if there exists a logical
cutoff.

Kind regards,
Martin


--
M.A. (Martin) Rijlaarsdam MSc. MD
Erasmus MC - University Medical Center Rotterdam
Department of Pathology
Room Be-432b
Shipping adress: P.O. Box 2040, 3000 CA Rotterdam, The Netherlands
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On Mon, Jun 16, 2014 at 3:15 PM, Ninni Nahm [guest] <guest@bioconductor.org>
wrote:

> Hi all!
>
> >From gene expression analysis I know that non-specific filtering can be
> done for example with the nsFilter function by calculating the IQR and
> applying a cut off.
>
> Is it possible to do something similar with a 27k Illumina Bead array?
> Could I even use the nsFilter?
>
> Thanks
>
> Ninni
>
>
>  -- output of sessionInfo():
>
> --
>
> --
> Sent via the guest posting facility at bioconductor.org.
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