Bioconductor SimpleSingleCell

Showing : simpleSingleCell • reset

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2.0k

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DropletUtils scRNA-seq emptyDrops simplesinglecell cell calling

updated 3.5 years ago by Aaron Lun ★ 28k • written 4.7 years ago by C T ▴ 140

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1.2k

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simpleSingleCell

updated 4.7 years ago by Aaron Lun ★ 28k • written 4.7 years ago by Angelos Armen • 0

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672

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simpleSingleCell

updated 4.7 years ago by Aaron Lun ★ 28k • written 4.7 years ago by Angelos Armen • 0

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4.4k

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DropletUtils EmptyDrops simpleSingleCell

updated 20 months ago by Stefano Mangiola ▴ 10 • written 4.7 years ago by shbrief ▴ 20

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1.6k

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scran simpleSingleCell

updated 4.7 years ago by Aaron Lun ★ 28k • written 4.7 years ago by Angelos Armen • 0

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2.8k

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limma edgeR simplesingleCell scran scater

updated 4.8 years ago by Aaron Lun ★ 28k • written 4.8 years ago by Bogdan ▴ 670

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1.6k

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SingleCellExperiment scran limma simpleSingleCell

updated 4.9 years ago by Aaron Lun ★ 28k • written 4.9 years ago by Matt Mulé • 0

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1.7k

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DropletUtils SingleCellExperiement DelayedArray simpleSingleCell

updated 4.9 years ago by Aaron Lun ★ 28k • written 4.9 years ago by Steve Pederson ▴ 170

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2.3k

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singlecellexperiment dropletutils simplesinglecell

updated 5.5 years ago by Aaron Lun ★ 28k • written 5.5 years ago by Peter Hickey ▴ 740

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851

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workflows simplesinglecell

updated 5.6 years ago by Aaron Lun ★ 28k • written 5.6 years ago by es.azadian • 0

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941

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simplesinglecell

updated 6.1 years ago by Aaron Lun ★ 28k • written 6.1 years ago by Xingyu • 0

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1.8k

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scater singlecellexperiment simplesinglecell

updated 6.2 years ago by Aaron Lun ★ 28k • written 6.2 years ago by Xingyu • 0

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3.1k

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scater simpleSingleCell workflows

updated 6.9 years ago by Aaron Lun ★ 28k • written 6.9 years ago by sandmann.t ▴ 70

13 results • Page 1 of 1

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Answer: PCA plot suggestions by Michael Love 41k

For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…

Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10

Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…

Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k

Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…

Answer: ATACseq merge peaks by ATpoint ★ 4.0k

That depends on your analysis. Typically, for differential analysis (and convenience) you would produce a single set of peaks (e.g. by merg…

Comment: Deseq2. decontXcounts not integers. Useful alternative? by camp ▴ 10

Yes, @atpoint is correct. decontX decontaminated counts are not integers due to the way the variation inference algorithm works, but you ca…

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Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length