Bioconductor 10x

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835

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scrn 10x scRNAseq emptyDrops DropletUtils

10 weeks ago • updated 9 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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1.0k

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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 2.5 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 5.3 years ago by Michael Love 43k • written 5.3 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: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by dan.gatti • 0

Was anyone else able to put the pieces together using the reply above? I read in one 10X sample using DropletUtils::read10xCounts() and thi…

Comment: Announcing GBCC 2025: The first-ever joint conference between Bioconductor and G by dzv20413 • 0

Wow, GBCC 2025 sounds amazing, can not wait to see the logo contest results! Also, I just played [Level Devil][1] and it is super addictive…

Comment: Memory error while running alignments by Erik Wright ▴ 150

How much memory is available on the computer? A distance matrix of 50k sequences requires at least 50k*50k/2 * 8 bytes = 10GB, assuming the…

Comment: NA values for DESeq2 p-values and adjusted p-values using large sample sizes by Gabriel • 0

Thank you very much for the reply. However, none of these three options seems to fit: 1) The genes for which NA appears do not have all 0 …

Comment: "organism" missing in BSgenome.Hsapiens.UCSC.hg38 slotNames by ubjw24 • 0

Thank you for your replies. I got the problem solved by installing mutSignature with this line: ``` devtools::install_github("dami82/mutS…

Votes

Comment: Check removeBatchEffect effectiveness

Comment: Streamlining the computing time for MiloDE p-value correction in large dataset?

Answer: DESeq2 design for haplotype MPRA

A: Different logFC (log2foldchange) values for genes from limma-voom and other too

Comment: Check removeBatchEffect effectiveness

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