[BioC] combining hgu133a hgu133b
ramasamy at cancer.org.uk
Thu Nov 11 20:23:06 CET 2004
I asked this question before and used almost the same subject line as
you did (mine was "Combining HGU133A & HGU133B data"). See
IMHO, it is better to do 1).
But if you insist on 2), this may be possible using the suggestion in
Laurent Gautier's reply but I think there might new functions since the
posting that could do this.
As Crispin Miller suggested, you have 2000+ probesets that you can to
use as quality check or calibrate.
On Thu, 2004-11-11 at 17:09, Auer Michael wrote:
> I would like to know what the best solution is in analyzing data from the
> same yource hybridized to hgu133a and hgu133b chips.
> 1. Shall the arrays be normalized sperately and merged afterwards?
> But then the question arises how to annotate, because there is no such
> environment available
> 2. Shall the arrays be merged into one affyBatch before normalization? How
> can I do smth like this. Which packages have the appropriate functions?
> 3. What about the similar sequences? Is there smth to worry about?
> 4. Is this not a problem often encounterd by analysits? Is there such a
> function which merges the two environments automatically?
> Thanks a lot for your help
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> Bioconductor at stat.math.ethz.ch
Adaikalavan Ramasamy ramasamy at cancer.org.uk
Centre for Statistics in Medicine http://www.ihs.ox.ac.uk/csm/
Cancer Research UK Tel : 01865 226 677
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