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Comment: Check removeBatchEffect effectiveness
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massimo
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Yes, I still get the warning, so there is confounding apparently. However, the resulting adjusted matrix is quite different than before and…
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Dear Alejandro,
Thanks for your interest.
No, one does not set `trend=TRUE` when running eBayes() after dpcDE(). The variance trends are …
Comment: Check removeBatchEffect effectiveness
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Gordon Smyth
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Both of your matrices, `design_batcheffects` and `design_timepoint`, span the intercept term, which will cause a warning about NA coefficie…
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Your essay was beneficial to me, and I found it to be very useful. Thank you for writing it. You give a wealth of knowledge that is not onl…
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The people who are reading your work are not taken into consideration, even though you appear to have a solid understanding of the subject …
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