Dear Christian,
Thanks for the prompt response and at the same time I apologize  for my so
late acknowledgement. One of the things that I am trying to do is check the
some of the following pm_mean and bgrd_mean evaluated from the probes listed
in the BGP file. I am just learning my way around the xps package but it
seems that the BGP file information is not in the schemeTreeSet. In addition
some times I need to view specific control probes and the way I go about
that feels  rather clunky (that's were my previous question about the
description of the exonmask came in. For example to select the probes
related to the polya_splike. I obtain the annotation frame find the UNIT_IDs
that correspond to the polya_spike genename and then use the Mask info to
get the corresponding X Y co-ordinates of the raw intensity values and then
unravel those with something of the form Y*2560+X+1 to get the position in
the intensity file. Is there a more direct way to do this?

Thanks in advance,
Achilleas

On Mon, Dec 20, 2010 at 12:34 PM, cstrato <cstrato@aon.at> wrote:

> Dear Achilleas,
>
> It depends what you are looking for. Currently xps supports hist() (or
> root.density()), boxplot (or root.profile()), nuseplot(), rleplot().
>
> Best regards
> Christian
> _._._._._._._._._._._._._._._._._._
> C.h.r.i.s.t.i.a.n   S.t.r.a.t.o.w.a
> V.i.e.n.n.a           A.u.s.t.r.i.a
> e.m.a.i.l:        cstrato at aon.at
> _._._._._._._._._._._._._._._._._._
>
>
>
> On 12/20/10 5:44 PM, Achilleas Pitsillides wrote:
>
>> Hi all,
>> I was was wondering what if there is an easy way to do evaluate QC
>> (quality
>> control) on exon arrays.
>> For Gene arrays I used simpleAffy but that works only on an affybatch
>> object.
>>
>> Thanks in advance,
>> Achilleas
>>
>>        [[alternative HTML version deleted]]
>>
>> _______________________________________________
>> Bioconductor mailing list
>> Bioconductor@r-project.org
>> https://stat.ethz.ch/mailman/listinfo/bioconductor
>> Search the archives:
>> http://news.gmane.org/gmane.science.biology.informatics.conductor
>>
>>

	[[alternative HTML version deleted]]

