Hi I have a RNAseq experiment with 2 genotypes (Wt vs Mut) and 2 conditions (treat untreat)
I like to run a interaction test and I created the dds object with the below command:
dds <- DESeqDataSet(se, design= ~genotype + genotype:treatment)
However I got the below error, which I was trying to track in the web but I found nothing.
Error in checkSlotAssignment(object, name, value) : assignment of an object of class "CompressedGRangesList" is not valid for slot 'rowRanges' in an object of class "DESeqDataSet"; is(value, "GenomicRanges_OR_GRangesList") is not TRUE
I can not figure out what is going on. I updated all packages but the error still there. I downloaded the airway data and everything since to work ok with that data