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Code should be placed in three backticks as shown below
# include your problematic code here with any corresponding output
# please also include the results of running the following in an R session
Hi, I`d like to normalize my dataset with DESeq2. I make the DESeq object with : dds = phyloseq_to_deseq2(ps, Design) followed by deseq_counts_vst = varianceStabilizingTransformation(dds).
And I get error saying every gene contains at least one zero, cannot compute log geometric means.
Now i want to use pseudocount. Although I don`t know how to write the script. Could you please help?