Bioconductor Cellranger

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CellRanger emptyDrops scRNAseq 10X

12 months ago rocanja ▴ 60

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ReadInR Cellranger GEX+Features+VDJ

3.2 years ago gregoire.destreel • 0

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CellBarcode DropletUtils emptyDrops() Cellranger scRNAseq

updated 2.9 years ago by rohitsatyam102 ▴ 20 • written 3.2 years ago by gregoire.destreel • 0

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single-cell 10X Cell calling DropletUtils cellranger

updated 6.1 years ago by Aaron Lun ★ 28k • written 6.1 years ago by xingxd16 ▴ 20

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Answer: Origin of the labels for the SingleCellMultiModal dataset by ATpoint ★ 4.8k

If you check the underlying code a bit you find that there is a file with data sources: ```r modes_file <- system.file("extdata", "metadat…

Comment: [ChIP-seq] DESeq2 on counts matrix from union set of called peaks by ATpoint ★ 4.8k

That plot looks extremely worrying. You have very unbalanced DE profiles and clearly two populations of peaks on the right. I would make su…

Answer: Having Trouble Using CNE12() and CNE21() in CNEr by 1324087964 • 0

![enter image description here][1] [1]: /media/images/d1a91557-b19e-4fbf-b5a1-c4fd42b9

Comment: [ChIP-seq] DESeq2 on counts matrix from union set of called peaks by Luca • 0

Sorry for reviving this 1 month later, but I was reading about size factor estimation, and just wanted to add my findings if anyone stumble…

Comment: DiffBind can't find a DAR by ATpoint ★ 4.8k

"My cake does not look as advertised in the recipe", with this sloppy sentence I hope you understand that you need to give people details, …

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Comment: DESeq - help with pair wise comparisons

Answer: Is random access by row index possible for an indexed VCF file?

Answer: SingleR with multiple single cell references

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