Bioconductor Michael Love

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deseq2 timecourse michael love multiple time points

5.9 years ago cp1015 • 0

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DESeq2 michael love

updated 6.7 years ago by Michael Love 43k • written 6.7 years ago by gkuffel ▴ 10

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deseq2 michael love

updated 6.8 years ago by Michael Love 43k • written 6.8 years ago by sam.far.7 • 0

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deseq2 michael love

updated 7.1 years ago by Michael Love 43k • written 7.1 years ago by Ashu ▴ 10

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deseq2 timecourse multiple time points mlr michael love

updated 7.2 years ago by Michael Love 43k • written 7.2 years ago by ap874 • 0

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Michael Love Salmon tximport tx2gene

updated 7.5 years ago by Michael Love 43k • written 7.5 years ago by pvd2107 ▴ 30

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Comment: European Bioconductor Conference 2023 planning by magnificent.mollusk.nvtp • 0

I once co-organized a genomics meetup where logistics, speaker balance, and outreach felt like solving a live [connections game](https://co…

Answer: Can I set the normalizationFactors of DEseq2 object as 1 after using RUVg? by Michael Love 43k

I'm not familiar with this usage, or code here ``` normFactors <- exp(-1 * offst(set2)) ``` In the RNA-seq gene-level workflow, we …

Answer: Which of apeglm and ashr may be more appropriate for pseudobulked DESeq2 analysi by Michael Love 43k

> apeglm appears much more aggressive in shrinkage, pushing many genes toward logFC = 0 > ashr maintains a gradient of shrinkage val…

Comment: voomLmFit fitted log-CPM values by Gordon Smyth 53k

The fitted values are on the log2CPM scale. I would have told you if they were not! I think you may be getting confused by the differences…

Comment: voomLmFit fitted log-CPM values by Lina ▴ 10

Is the output from fitted(v) in the log2 CPM scale? or CPM scale?

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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?

Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea

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