I am trying to create a DESeq dataset object from a dataset in GEO as follows:
deseq2_142731 <- DESeqDataSetFromMatrix(countData = GSE142731[,2:ncol(GSE142731)],colData = labels_gse142731,design = ~V1)
However, I get an error:
Error in DESeqDataSet(se, design = design, ignoreRank) : some values in assay are not integers
Both the colData and countData variables are from GEO, they have the same dimension. Please, any ideas on how to handle this?