[BioC] Suggestions on Agilent gene expression data

[Kasper Daniel Hansen]

This does not look at all like an Agilent data file from Feature  
Extractor. I suggest you contact your collaborators and get an idea  
about what you should use.

Kasper

On Jun 11, 2008, at 4:43 PM, ss wrote:

> Dear all,
>
> For whom is familiar with Agilent gene expression data, I would like  
> to
> ask help.
>
> We recently received some Agilent gene expression data from our
> collaborators. For individual sample, there are 7 corresponding  
> columns:
>
>  Unknown:Log(Ratio)  Unknown:Ratio  Unknown:Fold Change   
> Unknown:Log(Error)
> Unknown:P-Value  Unknown:Intensity 1  Unknown:Intensity 2
> It seems that Ratio= Intensity1/Intensity2. I wonder whether I  
> should use
> log2(Ratio) or Log(Ratio) or just Ratio for further analysis.  
> Besides, why
> should Ratio be calculated as Intensity1/Intensity2 instead of
> Intensity2/Intensity1?
>
> Thank you very much for your help in advance!
>
> Sincerely,
>      Allen
>
> 	[[alternative HTML version deleted]]
>
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