Re: [R] Difference between normalizeWithinArrays and stat.ma

From: James MacDonald <jmacdon_at_med.umich.edu>
Date: Wed 14 Jul 2004 - 02:12:08 EST


Since both of the packages you mention are part of Bioconductor, you would do well to re-post in the correct list (bioconductor@stat.math.ethz.ch).

Best,

Jim

James W. MacDonald
Affymetrix and cDNA Microarray Core
University of Michigan Cancer Center
1500 E. Medical Center Drive
7410 CCGC
Ann Arbor MI 48109
734-647-5623

>>> "Saroj Mohapatra" <saroj@wayne.edu> 07/13/04 01:51PM >>>
Dear friends

I have recently migrated to R (8.0) for analysis of microarray data. I am doing a loess (print-tip, perhaps scaled) normalization. I find that
there are 2 options to do this: using normalizeWithinArrays (Limma) and
stat.ma(sma). I find the objects returned by the two functions are different, however the M and A values seem to be the same. Is one function preferable over the other? Any feedback regarding this would be
appreciated.

Thanks and regards,

Saroj



Saroj K Mohapatra, MD
Research Associate
Karmanos Cancer Institute
Wayne State University School of Medicine 110 E. Warren, Room 311
Detroit MI 48201
313-833-0715 x2424
saroj@wayne.edu

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https://www.stat.math.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide! http://www.R-project.org/posting-guide.html Received on Wed Jul 14 02:19:21 2004

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