Bioconductor SimplesingleCell

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DropletUtils scRNA-seq emptyDrops simplesinglecell cell calling

updated 4.5 years ago by Aaron Lun ★ 28k • written 5.7 years ago by C T ▴ 140

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1.6k

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simpleSingleCell

updated 5.7 years ago by Aaron Lun ★ 28k • written 5.7 years ago by Angelos Armen • 0

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903

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simpleSingleCell

updated 5.7 years ago by Aaron Lun ★ 28k • written 5.7 years ago by Angelos Armen • 0

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5.2k

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DropletUtils EmptyDrops simpleSingleCell

updated 2.7 years ago by Stefano Mangiola ▴ 40 • written 5.7 years ago by shbrief ▴ 20

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2.1k

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scran simpleSingleCell

updated 5.7 years ago by Aaron Lun ★ 28k • written 5.7 years ago by Angelos Armen • 0

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3.4k

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limma edgeR simplesingleCell scran scater

updated 5.8 years ago by Aaron Lun ★ 28k • written 5.8 years ago by Bogdan ▴ 670

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2.1k

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SingleCellExperiment scran limma simpleSingleCell

updated 5.9 years ago by Aaron Lun ★ 28k • written 5.9 years ago by Matt Mulé • 0

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2.0k

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DropletUtils SingleCellExperiement DelayedArray simpleSingleCell

updated 5.9 years ago by Aaron Lun ★ 28k • written 5.9 years ago by Steve Pederson ▴ 170

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3.3k

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singlecellexperiment dropletutils simplesinglecell

updated 6.5 years ago by Aaron Lun ★ 28k • written 6.5 years ago by Peter Hickey ▴ 750

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1.1k

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workflows simplesinglecell

updated 6.6 years ago by Aaron Lun ★ 28k • written 6.6 years ago by es.azadian • 0

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1.1k

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simplesinglecell

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

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2.1k

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scater singlecellexperiment simplesinglecell

updated 7.2 years ago by Aaron Lun ★ 28k • written 7.2 years ago by Xingyu • 0

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3.9k

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scater simpleSingleCell workflows

updated 7.9 years ago by Aaron Lun ★ 28k • written 7.9 years ago by sandmann.t ▴ 70

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Comment: Bioconductor 3.20 Release Schedule by randyprice13102000 • 0

This offers much info https://bioconductor.org/checkResults/release/bioc-LATEST/

Comment: Filtering after DESeq by ATpoint ★ 4.8k

The problem is that your prefilter is not group-aware so the behaviour of seeing these sorts of outliers is expected. This is why I always …

Comment: GSEA preranked analysis downstream of DEseq2 by ATpoint ★ 4.8k

All due respect, this is what people do since pvalues exist, so this paper is not a reference, not is this a special score that merits a na…

Comment: Check removeBatchEffect effectiveness by ATpoint ★ 4.8k

> insert size, mean GC, etc... This is not a classical "batch" in the common sense, at least I've never seen this to be corrected for expl…

Answer: Check removeBatchEffect effectiveness by Gordon Smyth 52k

Your call to removeBatchEffect() is not correct because that function does not have an argument called `batch3`, meaning that the batch fac…

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Answer: DiffBind; Error: No sites have activity greater than filter value

DiffBind; Error: No sites have activity greater than filter value

remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline

How to remove X & Y chromosome genes from RNAseq data

Is it advisable to remove X and Y chromosome genes in mouse bulk RNA-seq data at the level of the count matrix?

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Popular Question to Dario Strbenac ★ 1.6k