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Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design
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James W. MacDonald
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It is not uncommon for library size to be apparent in an MDS plot. You can use `sva` or `RUV` to account for that.
Comment: p-adjusted values in multiple comparisons
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Josh
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0
Yes, using lmFit with block and duplicateCorrelation is appropriate; mobile data collection can illustrate blocking importance. First estim…
Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design
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abaed
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0
Understood, thanks. The issue I'm seeing is that even after normalization, the MDSplot still orders samples by library size. I suspect cell…
Answer: Differential motif analysis
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James W. MacDonald
68k
This site is meant to provide technical help for Bioconductor packages. Your questions would be more on-topic for biostars.org.
Comment: replace cat with message in glmTreat when lfc = 0
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ATpoint
★
4.9k
> but there is no way to capture this type of printing when you're fully aware of what is happening and don't want to see the messages (e.g…
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