Hi! Am a complete beginner to using DESeq2. I have read the vignette and am encountering an error when I am trying to create a DESeqDataSet from the count data. I am getting an error that some of the values in the assay are negative. However, I have scanned the data set and there are no negative integers. Also i removed the genes with zero values from my data set and started again but still getting the same error. Would be grateful if some one can help me here.

Code should be placed in three backticks as shown below

``dds <-DESeqDataSetFromMatrix(countData=countData,colData=colData, design= genotype+BDQ_treatment)enter code here

Error in DESeqDataSet(se, design = design, ignoreRank) : some values in assay are negative

sessionInfo( )

```

You don't need to remove 0's.

What do you get with

any(countData < 0)

(fixed, typo first time around)