Where can i find huex10stv2cdf annotation file? Unable to download it from the link: https://stat.ethz.ch/pipermail/bioc-devel/2007-October/001411.html
That's not an annotation file (which would map the probeset IDs to various gene annotations, etc). Instead that is a cdf package intended to be used with the affy package, in order to process the raw data into expression values.
But do note that won't work either, as the affy package will not let you process the Exon arrays. For that you should use the oligo package, and that should be straightforward:
library(oligo) dat <- read.celfiles(list.celfiles()) eset <- rma(dat)