[BioC] factorial analysis of affy arrays

[Robert Gentleman]

other choices include
   factDesign
  daMA

  which both are (as I understand it) more directed towared factorial  
designs

Robert

On Feb 8, 2005, at 2:38 AM, <Arne.Muller at sanofi-aventis.com> wrote:

> Hello,
>
> look at the limm package and browse the lists archive for  
> postings/questions on limma. It's a linear model that adjusts variance  
> via other genes on the chip (I hope I got this right ...) and probably  
> performs better than "lm/anova". It's one of the most frequently used  
> packages for finding differentially expressed genes. It also works  
> single and two channel arrays.
>
> 	Arne
>
>> -----Original Message-----
>> From: bioconductor-bounces at stat.math.ethz.ch
>> [mailto:bioconductor-bounces at stat.math.ethz.ch]On Behalf Of Jakub
>> Orzechowski
>> Sent: 08 February 2005 11:21
>> To: bioconductor at stat.math.ethz.ch
>> Subject: [BioC] factorial analysis of affy arrays
>>
>>
>> Hi! I'm doing some experiments with affy arrays, with a 2*2*2
>> factorial
>> design. Which tools are available for analysis of such experiments?
>> Which methods can you recomended? What about ANOVA stuff from
>> YASMA? Any
>> other suggestions?
>>
>> thanks
>> Jakub Orzechowski
>>
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>
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>
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| Robert Gentleman              phone: (206) 667-7700                    
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| Head, Program in Computational Biology   fax:  (206) 667-1319   |
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