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Jenny Drnevich
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written 2.8 years ago by
Jenny Drnevich
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Answer: Guidance on limma for pseudobulk scRNA-seq with multi-factor design
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Gordon Smyth
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What you describe sounds a good approach to me.
I would also use sample weights (`sample.weights=TRUE` when running `voomLmFit`) and robust…
Comment: Can I set the normalizationFactors of DEseq2 object as 1 after using RUVg?
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Michael Love
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I moved your post from an "answer" to a "comment".
I don't know about `offst()` function, what is the scale or direction, or whether you a…
Comment: Average biological replicates in RNA-seq
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boczniak767
▴
740
@atpoint Should I first standardise data and then average replicates?
Comment: 3-factor DESeq2 trime-series analysis
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gogeni5529
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0
Thans you @swbarnes2 for the answer.
I can see why trying to include all three parameters might be difficult to interpret. But we're inte…
Comment: 3-factor DESeq2 trime-series analysis
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swbarnes2
★
1.4k
What does your PCA look like? A lot of times, I find that different cell lines are so different from each other, that they should not be d…
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