Hi there, Is there any way to get rid of this while creating object for Deseq2. I used script: dds <- DESeqDataSetFromMatrix(countData = cts, colData = coldata, design = ~ condition) Error in DESeqDataSet(se, design = design, ignoreRank) : counts matrix should be numeric, currently it has mode: character

I check my count matrix and I don't see any character specified only numeric values except row names as genes and colum names as samples. Then I also run the script to see if my count matric is numeric
all(is.numeric(cts)) False I don't know where creating dds showing me this error. I will appreciate your help in this matter. Best: Imran

When you read the counts matrix into R, use stringsAsFactors=FALSE. Note that this default of turning strings into factors in the background has been removed in R 4.0.0.