Entering edit mode
SAURIN
★
1.1k
@saurin-799
Last seen 9.6 years ago
Hi,
I am using R-2.0 with develOK=TRUE. Here, esetSub2 is
my differentially expressed gene expression set.
>esetSub2X <- getIntensityMatrix(esetSub2);
>esetSub2Norm <- vsn(esetSub2,describe.preprocessing =
FALSE);
vsn: 762 x 6 matrix (1 stratum). Please wait for 10
dots: ..........
> esetSub2Train <- esetSub2Norm[,4:6];
Error in validObject(.Object) : Invalid "phenoData"
object: FALSE
> traceback();
7: stop(paste("Invalid \"", Class, "\" object: ",
errors, sep = ""))
6: validObject(.Object)
5: initialize(value, ...)
4: initialize(value, ...)
3: new("phenoData", pData = pD, varLabels = vL)
2: phenoData(x)[j, , ..., drop = FALSE]
1: esetSub2Norm[, 4:6]
> vsnPlotPar(esetSub2Norm, "factors")
Error in vsnPlotPar(esetSub2Norm, "factors") :
'ny' does not seem to be resulting from vsn.
> vsnPlotPar(esetSub2Norm, "offsets")
Error in vsnPlotPar(esetSub2Norm, "offsets") :
'ny' does not seem to be resulting from vsn.
> traceback();
2: stop("'ny' does not seem to be resulting from
vsn.")
1: vsnPlotPar(esetSub2Norm, "offsets")
is something wrong in my expression set?
thank you,
Saurin
