Bioconductor SingleCellData

Showing : SingleCellData • reset

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250

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imcRtools SingleCellData imcdatasets SpatialWorkflow

updated 3 months ago by James W. MacDonald 65k • written 3 months ago by Simon • 0

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475

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tidyverse R SingleCellExperiment SingleCellData

updated 4 months ago by daenerystargaryen56 • 0 • written 4 months ago by Sitapriya • 0

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343

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AnnotationHubSoftware SingleCellData annotationTools

updated 5 months ago by ATpoint ★ 4.0k • written 5 months ago by yw24418 • 0

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661

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DropletUtils SingleCellData

updated 8 months ago by ATpoint ★ 4.0k • written 8 months ago by p.vlachou-efstathiou • 0

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887

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singleR SingleCellExperiment SingleCellData

10 months ago Matvii Mykhailichenko • 0

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592

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SingleCellData ComputationalBiology

12 months ago Chrysothemis ▴ 10

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720

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DimensionReduction SingleCellData multiomics MachineLearning

16 months ago Diego's • 0

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535

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SingleCell SingleCellData

updated 19 months ago by ATpoint ★ 4.0k • written 19 months ago by Romina • 0

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778

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SingleCell SingleCellExperiment SingleCellWorkflow SingleCellData

19 months ago k1m ▴ 20

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903

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SingleCell SingleCellData SingleCellWorkflow SingleCellExperiment

19 months ago Romina • 0

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959

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SingleCellData splatter

updated 24 months ago by luke.zappia ▴ 50 • written 24 months ago by Fatima • 0

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782

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GSVA SingleCellData

updated 2.1 years ago by Robert Castelo ★ 3.3k • written 2.1 years ago by Amna • 0

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1.6k

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biobase SingleCellData seurat SingleCell

updated 2.2 years ago by James W. MacDonald 65k • written 2.2 years ago by NGS_enthusiast • 0

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1.8k

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SingleCellExperiment DropletUtils SingleCellData

updated 3.3 years ago by Aaron Lun ★ 28k • written 3.3 years ago by msn ▴ 10

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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…

Comment: Deseq2. decontXcounts not integers. Useful alternative? by ATpoint ★ 4.0k

I do not know this decontamination tool you use but generally: If these counts are basically "corrected" raw counts in the sense that they'…

Votes

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

Comment: Deseq2. decontXcounts not integers. Useful alternative?

Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)

biomaRt error: database disk image is malformed

Comment: biomaRt : No lock file for BiocFileCache

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Popular Question to James W. MacDonald 65k

Scholar to Michael Love 41k

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