Bioconductor Scrna

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565

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Seurat DESeq2 single-cell scRNA Pseudobulk

updated 6 months ago by Guido Hooiveld ★ 4.1k • written 6 months ago by Sara • 0

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1.5k

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scRNAseq quickcluster scRNA scran

12 months ago ruba-mahmoud • 0

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1.3k

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scRNAseq scrna paireddesign edgeR pseudobulking

updated 16 months ago by Gordon Smyth 52k • written 16 months ago by garcia • 0

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636

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scRNA scRNAseq

updated 16 months ago by ATpoint ★ 4.6k • written 16 months ago by Omer • 0

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1.0k

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scrna scRNAseq

updated 13 months ago by Gabriella • 0 • written 21 months ago by sarah.jobbins • 0

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924

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scran Normalization scRNA BatchEffect

23 months ago r_grau ▴ 10

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3.2k

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DropletUtils emptyDrops scRNA scRNAseq 10x

2.3 years ago Peter Hickey ▴ 740

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2.8k

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DESeq2 Scrna scRNAseq

3.4 years ago RDoc ▴ 10

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1.2k

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scRNAseq scRNA batchelor BatchEffect

updated 4.0 years ago by Aaron Lun ★ 28k • written 4.1 years ago by Adrien • 0

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2.2k

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scRNA zinbwave batch IntegratedData

updated 4.2 years ago by davide risso ▴ 980 • written 4.2 years ago by Assa Yeroslaviz ★ 1.5k

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2.0k

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Seurat scRNA debugging exceptions unit-test

updated 5.1 years ago by Martin Morgan 25k • written 5.1 years ago by moldach ▴ 20

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5.3k

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scRNA monocle packages Tutorial

5.3 years ago 444579004 • 0

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1.8k

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scrna scrnaseq differential gene expression

updated 7.1 years ago by davide risso ▴ 980 • written 7.1 years ago by d.depledge • 0

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1.0k

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SCRNA

updated 7.1 years ago by Aaron Lun ★ 28k • written 7.1 years ago by sumetha • 0

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4.7k

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MAST scRNA GSEA

updated 7.4 years ago by Andrew_McDavid ▴ 270 • written 7.4 years ago by siajunren • 0

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1.6k

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scater scrna

updated 7.8 years ago by Aaron Lun ★ 28k • written 7.8 years ago by hrishi27n ▴ 20

16 results • Page 1 of 1

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Answer: scuttle::perFeatureQCMetrics runs very slow for big scRNA-seq data by Aaron Lun ★ 28k

You don't mention how your matrix data is being represented, but if it's a file-backed matrix (e.g., `HDF5Matrix` or one of its variants, b…

Comment: contrast matrix design for a continuous variable by dtzhu337 • 0

Thank you, Gordon. X is time splines for time point, and yes, it's needed. However, I was also thinking to incorporate time point with se…

Answer: contrast matrix design for a continuous variable by Gordon Smyth 52k

Yes, the design and contrasts are correct. Your analysis is also adjusted for covariates defined by X, which I assume is what you want to …

Comment: fail to use addPerROIQC in Rmd by liu.n • 0

That's odd. So it can run successfully within markdown but would be failed when knitting?

Comment: fail to use addPerROIQC in Rmd by joseph.joonsang • 0

> dim(spe) [1] 19962 425

Votes

Answer: contrast matrix design for a continuous variable

A: What's the difference between p.adjust and qvalue?

Answer: DESeq2- merging technical vs biological replicates

Comment: What type of counts data to import for performing Isoform analysis in edgeR

Answer: What type of counts data to import for performing Isoform analysis in edgeR

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Popular Question to Ou, Jianhong ★ 1.3k