I am trying to process GEO series, like GSE36411 data (Illumina data) using lumi package and limma package.
I am getting following following error for above mentioned series and for many such series.
> raw.data <- read.ilmn(files="GSE36411_non-normalized.txt")
Reading file GSE36411_non-normalized.txt ... ...
Error in readGenericHeader(fname, columns = expr, sep = sep) :
Specified column headings not found in file
> abc1 <- lumiR("GSE36411_non-normalized.txt", lib.mapping = 'lumiHumanIDMapping')
Error in gregexpr("\t", dataLine1)[] : subscript out of bounds
Can anyone suggest me the reason for this and how can I solve such issue. or there is any such package is available by which i can process such type of files of Illumina data.