Bioconductor 10X

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821

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scrn 10x scRNAseq emptyDrops DropletUtils

9 weeks ago • updated 8 weeks ago Peter Hickey ▴ 760

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1.6k

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labels PBMC SingleCellMultiModal 10X

updated 6 months ago by ATpoint ★ 5.0k • written 6 months ago by javier.ruizramirez • 0

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994

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CellRanger emptyDrops scRNAseq 10X

19 months ago rocanja ▴ 60

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1.4k

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SingleCell emptyDrops 10X

updated 2.4 years ago by Peter Hickey ▴ 760 • written 2.4 years ago by sandra.garces.19 • 0

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1.2k

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RNAseq 10X

2.6 years ago wt215 • 0

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4.1k

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DropletUtils emptyDrops scRNA scRNAseq 10x

3.2 years ago Peter Hickey ▴ 760

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1.5k

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DropletUtils emptyDrops 10x

updated 4.7 years ago by Aaron Lun ★ 29k • written 4.7 years ago by Peter Hickey ▴ 760

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2.1k

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deseq2 zinbwave 10X scRNA-seq Differential expression

updated 5.2 years ago by Michael Love 43k • written 5.2 years ago by vincent.croset ▴ 20

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3.7k

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10x scrna-seq

updated 6.5 years ago by Aaron Lun ★ 29k • written 6.5 years ago by jma1991 ▴ 70

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9.2k

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single-cell 10X Cell calling DropletUtils cellranger

updated 6.6 years ago by Aaron Lun ★ 29k • written 6.6 years ago by xingxd16 ▴ 20

10 results • Page 1 of 1

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Comment: Help with defining groups by Phinney, Brett ▴ 10

I got it working , thank you!!!

Comment: Check removeBatchEffect effectiveness by massimo • 0

I would kindly ask for additional support. When not including the design_timepoint argument in removeBatchEffect and thus keeping the inter…

Comment: Error Loading Experiment from SimBenchData Package by ksankaran • 0

Aha, that was it! The object was class Seurat, but I didn't have it installed. After installing, everything works as expected.

Comment: Streamlining the computing time for MiloDE p-value correction in large dataset? by ATpoint ★ 5.0k

Is a method that is so computationally expensive really beneficial and necessary? You seem to have biological replication, don't you, so ps…

Answer: NA values for DESeq2 p-values and adjusted p-values using large sample sizes by ATpoint ★ 5.0k

Outliers without replacement, independent filtering or all-zero counts for that gene. That's the three options that trigger NAs https://bio…

Votes

Comment: Check removeBatchEffect effectiveness

Gene expression associated with continuous (quantitative) traits (Limma/edgeR/correlation)

Answer: Error Loading Experiment from SimBenchData Package

Comment: incomplete imputation of missing values with LEA impute() function

Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce

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