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@linweili_tj-11383
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Human Gene 1.0 ST array and exon arrays have only PM probesets and no MM probesets, thus generally it is not possible to perform MAS5 with these arrays. However, R package "xps" can indeed apply MAS5 to exon arrays and Human Gene 1.0 ST array. What is the detailed algorithm of MAS5 in "xps" package when it process these arrays? What are the differences between the modified MAS5 algorithm of "xps" and the regular MAS5 algorithm mentioned in sadd_whitepaper.pdf (Affymetrix website)?