i am very new to Bioconductor, and am preparing for the analysis in DESeq2 packages for RNA data.
when data handling with GEO data(GSE22219), at first i got GSE22219 data with ExpressionSet object,
so i need to convert it into DESeqDataSet class in order to use the DESeq2 package.
when i handled data as below, the error message appeared.
a7<-getGEO("GSE22219") data<-exprs(a7) data<-data[rowSums(data)>1,] pdata<-pData(a7) dds <- DESeqDataSetFromMatrix(countData = data,colData=pdata)
Error in DESeqDataSet(se, design = design, ignoreRank) :
some values in assay are not integers
i am sure all data are integers, if you know it , would you mind teaching me about it ?
thanks in advance !