Dear Sir/Madam,

I have a count matrix that values are peptide measurements and they are not integer. I want to ask if we are only able to use DESeq2 if the count matrix is integer and not double?

I got the following error when I am using

dds <- DESeqDataSetFromMatrix(countData = bigdf_t_copy, colData = sample_info, design = ~ Condition)

Error in DESeqDataSet(se, design = design, ignoreRank) : some values in assay are not integers

Thanks a billion for your kind help in advance.

Kind regards,

Sepehr

Careful. It's not just integers but a type of assay that follows a negative binomial distribution, that is typically digital counts as in RNA-seq or genomic assays such as ATAC-seq. What kind of experiment is this? Something like mass spectrometry?

It is basically NGS. Is it working with DESeq2?