[BioC] Combining data from different versions of Illumina HumanHT-12 v3

[Gavin Koh]

I am trying to analyse data from ArrayExpress E-GEOD-22098 (published
Dec last year).
According to the study methods, the data are Illumina HumanHT-12 v3
Expression BeadChips, but the hybridisation seems to have been done in
several batches, with different numbers of probes in each batch,
alternating between 48803 and 48804. Can anyone tell me how to combine
these different batches into the same file, please? I am trying to
read the probe data using the read.ilmn() function in limma, but
failing, because cbind complains the matrices are not the same length
(precise error is "Error in cbind(out$E, objects[[i]]$E) : number of
rows of matrices must match (see arg 2)").

Thank you in advance,

Gavin Koh