[BioC] ExpressionSet created by procset method in ArrayExpress
mamunur.rashid at kcl.ac.uk
Tue Jul 28 15:34:18 CEST 2009
I have recently posted a query names "How to use ExpressionSet for
I have created an ExpressionSet object using procset method in
But the problem I found out that in the ExpressionSet the numeric values
are in double quote. (i.e. "123.02". ) Now when I pass this expression
set in to the following R code
> b <- lumiB("p1") // p1 is the expression set I have created using
it shows me an error that Error in log(c("7413.841", "347.639",
"233.5174", "7120.314", "35.45117", : Non-numeric argument to
can anyone suggest me why the numeric data is converted to
string/characters while creating ExpressionSet. I will really appriciate
any help as I am really stuck in this point. Thanks in advance.
below is the code I have used:
> etabm421 <- list(path = ".",rawadata = NULL, rawfiles = NULL,
procdata = "E-TABM-421.processed.zip",procfile =
"E-TABM-421-processed-data-1583036605.txt",sdrf = "E-TABM-421.sdrf.txt",
idf = "E-TABM-421.idf.txt", adf = "A-MEXP-931.adf.txt")
> cn = getcolproc(ETABM421)
 "Reporter REF" "BeadStudio:AVG_Signal"
 "BeadStudio:Detection Pval"
> proset = procset(ETABM421,cn)
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