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This statement makes zero sense in response to what I wrote.
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I focused on the fact that DESeq2 models overdispersion, but overlooked its implicit assumption: normalisation works when the main source o…
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Thank you very much. I mistakenly drew a superficial analogy. I equated KO counters with gene counters.
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Both vst or logcpm will favor expression level (magnitude of counts) rather than differences in a hclust/heatmap. For differences you need …
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The DESeq2 developer has advised many times against DESeq2 for metagenomics. Please search for related posts over at support.bioconductor.o…
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I apologise for how that sounded; I wanted to be as detailed as possible.
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