Dear scientists,
I have human HTA 2.0 arrays and was using limma to detect gene-level and exon-level differential expression, and was wondering whether there is any package to make use of the junction probesets (JUC in contrast to PSR) to detect alternative splicing events? For the gene-level and exon-level differential expression, I used only PSR probesets, since JUC probesets target splicing sites and are partially redundant between isoforms.
Thank you very much :)
Sincerely,
Sunny