The output of
exprs(raw_data) (raw_data being the GeneFeatureSet object) has 1,102,500 entries (individual probes)
However, the output of
getProbeInfo(raw_data, target = "core") has 861,493 entries. And from what I understood about this function is that it maps each individual probe to its corresponding probeset (or transcript cluster in this case i guess) (i.e. PROBEID). If that's true, why this discrepancy in the numbers? Is it that ~300k probes are not part of probesets? If not, what do these 300k probes represent?