[BioC] Utilizing outlier information in RMA and MAS estimation?

[Lishuang Shen]

Hi:

With ReadAffy, Affy can mask the outliers as NA with option: rm.outlier=TRUE.

But I could not do RMA or MAS 5 estimation with AffyBatch obtained in this way. 
either using rma or using expresso, as I always got the error message about 
NA/NaN:

>background correction: mas 
>PM/MM correction : mas 
>expression values: mas 
>background correcting...Error in as.vector(data) : NA/NaN/Inf in foreign 
function call (arg 1)

Has anyone used outlier information during the expression estimation? I 
searched all the mailing list archieve, but found no mention on if this 
information is use or not, or information on if outliers marked as NA allowed 
in estimation.


Thank you for your time.


Lishuang Shen

BarleyBase,
Iowa State University
Ames, Iowa 50010
Tel: (515)-294-8479 (Office
Email: lshen at iastate.edu; shen_lishuang at yahoo.com