Bioconductor Ercc

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ImpulseDE2 ImpulseDE ERCC RUVSeq

3.9 years ago Mallory ▴ 10

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3.9k

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ERCC rna-seq edgeR tmm normalised values

updated 8.6 years ago by Aaron Lun ★ 29k • written 8.6 years ago by what_theheck24 • 0

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17k

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RNAseq deseq2 ercc

updated 8.9 years ago by Simon Anders ★ 3.8k • written 8.9 years ago by mbeckste ▴ 30

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8.4k

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limma voom deseq normalization ercc

updated 9.8 years ago by Gordon Smyth 53k • written 9.8 years ago by komal.rathi ▴ 120

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6.0k

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edger ercc

10.8 years ago John ▴ 10

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3.4k

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seqc rsubread featurecounts subjunc ercc News

10.8 years ago Wei Shi ★ 3.6k

6 results • Page 1 of 1

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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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