[BioC] difference in RMA

[cstrato]

Dear Marco

I believe, the difference is that Partek does quantile normalization as
in bioC package affy, but Expression Console does only sketch quantile
normalization.

Regards
Christian
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James MacDonald wrote:
> I would suggest you contact either Affy, GeneSpring or Partek.
>
> Best,
>
> Jim
>
>
>
> Marco Fabbri wrote:
>   
>> Dear All,
>> I am using the mouse gene 1.0 ST affymetrix. In order to run RMA I
>> used expressionist console from affymetrix, genesping and partek.
>> Genespring and partek give very similar results, instead expressionist
>> console produce  much higher difference between samples.
>> I tried to understand more but there is little information around. Any
>> suggestion?
>>
>> Thank you
>>
>>
>> Marco
>>     
>
>