Bioconductor Mouse

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annotation SingleR mouse SingleCellData scRNAseq

6 months ago Muhammad • 0

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910

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4.3 years ago nicocillari • 0

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RNAseq Affymetrix Mouse

updated 4.9 years ago by Guido Hooiveld ★ 4.1k • written 4.9 years ago by olrema • 0

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AnnotationHub Ensembl Mouse AnnotationHub Ensembl

5.7 years ago dmgatti ▴ 10

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7.8 years ago Emilie • 0

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updated 8.0 years ago by Mike Smith ★ 6.6k • written 8.0 years ago by julie.chevalier • 0

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8.2 years ago Keith Hughitt ▴ 180

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bead chip Annotation Mouse Lumi probeID2nuID

updated 9.1 years ago by Andy Lynch ▴ 120 • written 9.1 years ago by smt8n • 0

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10.0 years ago Thomas Maurel ▴ 800

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human mouse GRCh38 biomart Ensembl News

updated 10.2 years ago by Sonali Arora ▴ 390 • written 10.2 years ago by Thomas Maurel ▴ 800

10 results • Page 1 of 1

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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?

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

Fitted values are obtained from limma MArrayLM objects by ``` fitted(v) ```

Votes

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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