Bioconductor Limma time-course

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limma-voom design matrix limma time-course limma design matrix limma

7.5 years ago SPbeginner • 0

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Limma time-course

7.8 years ago harelarik ▴ 60

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Comment: readDNAStringSet with non DNA characters by biomiha ▴ 20

DECIPHER does the trick, thank you!

Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design by James W. MacDonald 68k

It may not be that common for bulk RNA-Seq, but in my experience it's very common for bulk miRNA-Seq.

Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design by abaed • 0

Nice. That's great to hear. `sva` was actually the next step I was planning to try. My colleagues haven't seen this kind of pattern before …

Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design by James W. MacDonald 68k

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 by Josh • 0

Yes, using lmFit with block and duplicateCorrelation is appropriate; mobile data collection can illustrate blocking importance. First estim…

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Comment: readDNAStringSet with non DNA characters

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