Showing : 10X • reset
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emptyDrops new default alpha = Inf giving far fewer non-empty droplets than under old default of alpha = NULL
scrn 10x scRNAseq emptyDrops DropletUtils
3 months ago Peter Hickey ▴ 760
1
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1
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1.7k
views
Origin of the labels for the SingleCellMultiModal dataset
labels PBMC SingleCellMultiModal 10X
updated 7 months ago by ★ 5.0k • written 7 months ago by • 0
0
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2
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1.1k
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Non-empty droplets versus good quality cells
CellRanger emptyDrops scRNAseq 10X
20 months ago rocanja ▴ 60
0
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1
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1.5k
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Choosing the right lower limit for emptyDrops
SingleCell emptyDrops 10X
updated 2.5 years ago by ▴ 760 • written 2.6 years ago by • 0
0
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2
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1.2k
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Compare and filter three BAM files
RNAseq 10X
2.7 years ago wt215 • 0
4
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5
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4.2k
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`emptyDrops()` calling 'too many' non-empty droplets
DropletUtils emptyDrops scRNA scRNAseq 10x
3.3 years ago Peter Hickey ▴ 760
1
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1
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1.5k
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Number of non-empty drops returned by emptyDrops() depends on value of test.ambience
DropletUtils emptyDrops 10x
updated 4.8 years ago by ★ 29k • written 4.8 years ago by ▴ 760
5
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3
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2.2k
views
Latent factors for differential expression
deseq2 zinbwave 10X scRNA-seq Differential expression
updated 5.4 years ago by 43k • written 5.4 years ago by ▴ 20
4
votes
2
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3.8k
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When to combine samples in the pre-processing of 10x scRNA-seq data?
10x scrna-seq
updated 6.6 years ago by ★ 29k • written 6.6 years ago by ▴ 70
7
votes
12
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9.3k
views
How to identify real cells in 10X RNA-seq ?
single-cell 10X Cell calling DropletUtils cellranger
updated 6.7 years ago by ★ 29k • written 6.7 years ago by ▴ 20
10 results • Page 1 of 1
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Comment: gene Set with high AUC score but no cells assigned to cell type by gogeni5529 • 0
THIS is spam. How Do I delete it?
Comment: limpa - drivers for unusually high standard error? by Julia Broadbent • 0
Apologies for not being clearer in my initial question, but thank you for answering regardless! The large SE values I am looking at appear …
Answer: limpa - drivers for unusually high standard error? by Gordon Smyth 53k
Hi Julia, I am going to assume that you mean standard errors (SEs) returned by `dpcQuant()`, because later stages in the limpa pipeline do…
Comment: gene Set with high AUC score but no cells assigned to cell type by e.j.aaw.g.erm • 0
It sounds like AUCell is struggling with thresholding because your cDC2 gene set doesn t show a clear bimodal distribution. While a high AU…
Comment: featureCounts -L: high unassigned:mapq fraction by insurancetaaddddaxrealty • 0
FeatureCounts can behave differently with ONT cDNA BAM files due to long read splice patterns, and many users compare settings or presets m…
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Answer: gene Set with high AUC score but no cells assigned to cell type
Answer: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Post translational modifications and phosphoproteomics in limpa?
Answer: Post translational modifications and phosphoproteomics in limpa?
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