i have recently acquired some affymetrix CEL files, with genechip Human Transcriptome Array 2.0 in order to identify possible alternative splicing events. As I'm fresh in R and Bioconductor, any tutorials or papers i have found focused on human exon ST 1.0. Thus, i would like to ask if anyone has used the above genechip in R and how much the workflows from human exon ST are different and from some proposed pipelines:
So far, i tried to import the CEL files with oligo :
but it doesnt make any sence in summarizing in the probeset level or transcript level
Any suggestions or ideas ?