Dear Friends,

 

We make use Agilent scanner and feature extraction software for TIFF (16
bit) image extraction. But I have some doubts on the Feature extraction
output. In output, I find all intensity values (example: log ratio,
rProcessedSignal, gProcessedSignal, gMeanSignal, rMeanSignal etc) are given
in log base 10. Now my question is,

 

1.       Whether it is common to measure microarray binary data (TIFF) in
log base 10 or log base 2? 

2.       In case, measuring microarray intensities in log base 10 is right,
how come LIMMA will come to know that, intensity values are in log base 10?
How does it calculates  M and A value in log base 2?

 

I request any of you to answer my question.

 

Thanking you in anticipation.

 

Regards,

 

Prashantha


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