Bioconductor WindowCounts

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windowcounts featurecounts

updated 9.1 years ago by Aaron Lun ★ 29k • written 9.1 years ago by karl.nordstrom • 0

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csaw dumpPE windowCounts

9.8 years ago • updated 9.4 years ago asif.zubair • 0

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Answer: Guidance on limma for pseudobulk scRNA-seq with multi-factor design by Gordon Smyth 53k

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? by Michael Love 43k

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 by boczniak767 ▴ 740

@atpoint Should I first standardise data and then average replicates?

Comment: 3-factor DESeq2 trime-series analysis by gogeni5529 • 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 by 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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Answer: Limpa Pipeline Order

A: How barcode-plot enrichment is calculated?

Answer: ROAST compare results with complex design

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Popular Question to Assa Yeroslaviz ★ 1.5k