[BioC] hgu95av2

[Wolfgang Huber]

Hi Lana,

the probe packages correspond 1:1 to Affymetrix's "probe_tab" files. 
They typically do not contain sequences for all probes on the array 
(e.g. some control probes or "empty" cells would be expected to miss).

You will need to take care of the mapping between rows of the 
hgu95av2probe$sequences table and rows of the AffyBatch. The functions 
i2xy and xy2i (in the arehgu95av2cdf package) or equivalently 
sxy2indices and indices2xy (in the package affy) are supposed to help 
you with that.

Does this help?

  Best regards
  Wolfgang

  Schaffer wrote:
> Hi,
> I have just extracted out the hgu95av2probe$sequences and got 19,9084 but
> have 201800 intensities from a HGU95av2 CEL file.  Have you seen this 
> discrepancy before?  perhaps the CEL file is mislabeled?
> Lana

-------------------------------------
Wolfgang Huber
European Bioinformatics Institute
European Molecular Biology Laboratory
Cambridge CB10 1SD
England
Phone: +44 1223 494642
Fax:   +44 1223 494486
Http:  www.ebi.ac.uk/huber