Bioconductor 10x

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CellRanger emptyDrops scRNAseq 10X

10 months ago rocanja ▴ 60

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1.0k

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SingleCell emptyDrops 10X

updated 21 months ago by Peter Hickey ▴ 750 • written 21 months ago by sandra.garces.19 • 0

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953

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RNAseq 10X

22 months ago wt215 • 0

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3.4k

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DropletUtils emptyDrops scRNA scRNAseq 10x

2.5 years ago Peter Hickey ▴ 750

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1.3k

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DropletUtils emptyDrops 10x

updated 4.0 years ago by Aaron Lun ★ 28k • written 4.0 years ago by Peter Hickey ▴ 750

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1.7k

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deseq2 zinbwave 10X scRNA-seq Differential expression

updated 4.6 years ago by Michael Love 43k • written 4.6 years ago by vincent.croset ▴ 20

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3.1k

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10x scrna-seq

updated 5.8 years ago by Aaron Lun ★ 28k • written 5.8 years ago by jma1991 ▴ 70

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8.1k

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single-cell 10X Cell calling DropletUtils cellranger

updated 5.9 years ago by Aaron Lun ★ 28k • written 5.9 years ago by xingxd16 ▴ 20

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Comment: displaying the differential expression with deseq2 over 4X2 samples with the in by Martijn • 0

thanks James, but if I do pairwise analyses per subject, I get the impression that I only get the intercepts per gene. Do you mean regardin…

Comment: plyranges: find exact GRanges match keeping metadata columns by alexis.weinreb • 0

Thank you, this does clarify the available options.

Answer: displaying the differential expression with deseq2 over 4X2 samples with the in by James W. MacDonald 67k

If you have paired data you should block on subject, which is algebraically the same as fitting a model on the difference between treated a…

Answer: How to compare expression levels of genes between scRNAseq and bulkRNAseq? by jodan • 0

Your approach sounds solid! You might also consider plotting a scatter plot comparing log2 fold changes from both datasets to identify gene…

Answer: Unused arguments error without used arguments in GSVA? by jodan • 0

It looks like the ssgseaParam function might not be passing the correct parameters to GSVA::gsva(). The error suggests that minSize and max…

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Answer: Find exact GRanges match keeping metadata columns

Answer: Unused arguments error without used arguments in GSVA?

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