Bioconductor ScRNA

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821

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Seurat DESeq2 single-cell scRNA Pseudobulk

updated 9 months ago by Guido Hooiveld ★ 4.1k • written 9 months ago by Sara • 0

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1.6k

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scRNAseq quickcluster scRNA scran

15 months ago ruba-mahmoud • 0

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1.4k

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scRNAseq scrna paireddesign edgeR pseudobulking

updated 19 months ago by Gordon Smyth 52k • written 19 months ago by garcia • 0

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710

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scRNA scRNAseq

updated 19 months ago by ATpoint ★ 4.7k • written 19 months ago by Omer • 0

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1.2k

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scrna scRNAseq

updated 16 months ago by Gabriella • 0 • written 24 months ago by sarah.jobbins • 0

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1.0k

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scran Normalization scRNA BatchEffect

2.2 years ago r_grau ▴ 10

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3.5k

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DropletUtils emptyDrops scRNA scRNAseq 10x

2.6 years ago • updated 2.5 years ago Peter Hickey ▴ 750

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3.0k

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DESeq2 Scrna scRNAseq

3.6 years ago RDoc ▴ 10

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1.3k

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scRNAseq scRNA batchelor BatchEffect

updated 4.3 years ago by Aaron Lun ★ 28k • written 4.3 years ago by Adrien • 0

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2.4k

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scRNA zinbwave batch IntegratedData

updated 4.5 years ago by davide risso ▴ 980 • written 4.5 years ago by Assa Yeroslaviz ★ 1.5k

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2.2k

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Seurat scRNA debugging exceptions unit-test

updated 5.3 years ago by Martin Morgan 25k • written 5.3 years ago by moldach ▴ 20

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5.6k

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scRNA monocle packages Tutorial

5.5 years ago 444579004 • 0

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2.0k

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scrna scrnaseq differential gene expression

updated 7.3 years ago by davide risso ▴ 980 • written 7.3 years ago by d.depledge • 0

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1.1k

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SCRNA

updated 7.4 years ago by Aaron Lun ★ 28k • written 7.4 years ago by sumetha • 0

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4.9k

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MAST scRNA GSEA

updated 7.6 years ago by Andrew_McDavid ▴ 270 • written 7.6 years ago by siajunren • 0

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1.7k

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scater scrna

updated 8.1 years ago by Aaron Lun ★ 28k • written 8.1 years ago by hrishi27n ▴ 20

16 results • Page 1 of 1

Recent ...

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Comment: how many significant figures are there in DESeq2 output by ATpoint ★ 4.7k

If you want consistency then use a fixed software environment like Docker, wirh fixed code and thresholds that make sense. Rounding to near…

Comment: Compare TCGA-PAAD with GTEx gene expression by Jane • 0

why aren't there any answers?

Comment: Too many significant genes when integrating gtex and tcga by Jane • 0

I encountered the same issue: too many DEGs after limma analysis. It is sad that until today we can still see the paper published where GTE…

Comment: how many significant figures are there in DESeq2 output by Matthew McCormack ▴ 180

Thank you for your reply. It is good to know that cutoff of 0.05 means less than 0.05. My concerns are about consistency and reproducibili…

Comment: DiffBind edgeR normalization --- why are the normalization factors all equal to by ATpoint ★ 4.7k

No, normalization factors from edgeR rather than size factors from DESeq2 are not proportional, it's a different concept and implementation…

Votes

A: Unbalanced experiment with multiple samples from each patient.

Unbalanced experiment with multiple samples from each patient.

Answer: Vertical line at A=0, nothing else, on MA plot

Answer: GSVA Error Code "Calling gsva(expr=., gset.idx.list=., method=., ...) is defunct

Answer: Group-specific condition effects with individuals nested: matrix is not full ra

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