Hi Henrik,
Thanks a lot for your reply.
I am aware that probes/cells are not annotated just like probesets or
transcript clusters, so I just didn't explain my problem properly. I
have already done the analysis at the exon and transcript level using
your ExonRmaPlm() with mergeGroups=TRUE or FALSE
Also, I noticed in the affxparser library the readCel has the value of
NULL for indices. Could that be part of the problem?
readCel(filename,
indices = NULL,
readHeader = TRUE,
readXY = FALSE, readIntensities = TRUE,
readStdvs = FALSE, readPixels = FALSE,
re
Hello,
I am trying to run a MAT normalization for some CEL data created from
Mouse Promoter 1.0R, and then to run a limma analysis. I have 8 levels
with 3 replicates of each level.
##Setup
verbose <- Arguments$getVerbose(-8, timestamp=TRUE)
setwd("/home/jillian/microarray")
chipType <- "Mm_Prom
