There have literatures demonstrated that Human Gene 1.0 ST arrays utilized a methods (PLIER) for accessing reliability for each probe set. I wonder PLIER is quivalent to PSDABG or not. If there is not a equivalence, how to conduct PLIER in R? If PSDABG or DABG could be utilized for calculating PMA matrix, namely assigning p value < 0.04 to 'P', >=0.06 to 'A'. Thanks in advance!
require(oligo) require(pd.hugene.1.0.st.v1) affyRaw <- oligo::read.celfiles(celFiles) eset <- oligo::rma(object = affyRaw) xpa <- oligo::paCalls(object = affyRaw, method = 'PSDABG') xpa <- oligo::paCalls(object = affyRaw, method = 'DABG')