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Comment: DESeq2, results(dds, name = <reference>) interpretation results by James W. MacDonald 63k

No, putting -1 in the design matrix is a cell means model, which is the opposite. If you used `~ Cond + Cond:Time`, you would specify a fac…

Comment: Does countsFromAbundance="lengthScaledTPM" produce un-normalized counts? by Christian • 0

Thank you for the response and apologies for my late reply. I think I´m starting getting the concept now. The hints with the cqn is quite …

Comment: Does countsFromAbundance="lengthScaledTPM" produce un-normalized counts? by Christian • 0

Thank you for the response and apologies for my late reply. It`s a relieve that lengthScaledTPM and counts with offset both seem to perform…

Comment: Does countsFromAbundance="lengthScaledTPM" produce un-normalized counts? by Christian • 0

Thank you for the response (and to the other responders as well) and apologies for my late reply. Especially the reference to Soneson is ve…

Comment: DESeq2, results(dds, name = <reference>) interpretation results by Rockbar • 0

Hello James, Thank you for answering > testing that the mean expression of the time 2, condition A samples is > different from zero I ha…

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Scholar to James W. MacDonald 63k