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Thanks James -- Denise you can check the "note on factor levels" in the vignette.
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As a trivial example, consider this:
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(Intercept) Tre…
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The default parameterization in R is a treatment-contrasts parameterization that sets one of your groups as the baseline. So the intercept …
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There is no "MUST", but pseudobulk aggregation is beneficial to a) enable use of tested and robust methods such as limma (though it could u…
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