Hi,
I am having troubles with creating an eSet and would appreciate any help on
the following problem.
I am trying to create an eSet using the following code
pd <- read.table(file="pdata.txt",header =TRUE,row.names=1);
colnames(pd) <- c("type","tumor","time","id");
pdN <- list(type =
"Cellline/xenograft",tumor="primary,secondary,cellline",time =
"0hr,1hr,2hr,4hr", id = "1,2,3,4,5,6,7,8,9")
# Initialize exprSet object
pD <- new("phenoData", pData=pd, varLabels=pdN);
# This is my eSet!!!
metastasis.eset <- new("exprSet", exprs=as.matrix(geneExpr.log),
phenoData=pD)
I get the following error:
The phenoData class is deprecated, use AnnotatedDataFrame (with
ExpressionSet) instead
Can someone suggest me how to use the new method AnnotatedDataFrame to create
eSet?
Thanks
Manisha
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