Bioconductor TPP

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TPP

updated 6 months ago by James W. MacDonald 68k • written 6 months ago by flowreen.shikwana • 0

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542

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TPP

updated 12 months ago by James W. MacDonald 68k • written 12 months ago by Alexandre Mahé • 0

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TPP NPARC

updated 4.8 years ago by nils.kurzawa ▴ 20 • written 4.8 years ago by yangwanqi • 0

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TPP

updated 5.5 years ago by Gordon Smyth 53k • written 5.5 years ago by esmaeil.dehghan • 0

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software error TPP

updated 6.7 years ago by shepherl 4.2k • written 6.7 years ago by kkim369 • 0

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TPP

8.0 years ago Bioinformatics ▴ 30

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TPP

updated 8.0 years ago by Pariksheet Nanda ▴ 120 • written 8.0 years ago by Nemo ▴ 80

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TPP

updated 9.0 years ago by dchilds ▴ 40 • written 9.0 years ago by Bioinformatics ▴ 30

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tpp

updated 9.0 years ago by dchilds ▴ 40 • written 9.0 years ago by Bioinformatics ▴ 30

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TPP

updated 9.2 years ago by Martin Morgan 25k • written 9.2 years ago by Bioinformatics ▴ 30

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Comment: Heatmap of the Count Matrix by ArnulfoByrd • 0

Perhaps PCA loadings offer a more comprehensive perspective. Now, thinking back, I recall struggling with a similar data reduction dilemma …

Answer: readBam vs read_bam_insert_metrics by James W. MacDonald 68k

Depends on what you mean by input. If you mean to ask if you use `readBam` to generate something to use as an argument to `read_bam_insert_…

Answer: How to construct a BSgenome object from a custom genome assembly using BSgenomeF by James W. MacDonald 68k

There is an example in the help page for `forgeBSgenomePkgFromTwobitFile`. Have you tried emulating that?

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…

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Answer: Limpa Pipeline Order

A: How barcode-plot enrichment is calculated?

Answer: ROAST compare results with complex design

How to account for solvent controls in DESeq2 when comparing follicular vs luteal phase?

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