I have been trying to analyse raw microarray data (Illumina HumanHT-12 V4.0 expression beadchip) downloaded from GEO.
- Can anyone explain following error and ways to rectify it.
- Any alternate method will be appreciated.
- I would like to have a base corrected, quantile normalised data.
For information series matrix is already log transformed and normalised so can not use "GEOquery" package.
> setwd("R:/xxxx/yyyy/123/RAW files GSE/GSE42826")
> lumi42826<- lumiR("GSE42826_non-normalized.txt", probeid="Probe_Id")
Error in gregexpr("\t", dataLine1)[] : subscript out of bounds