Bioconductor 10x

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716

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CellRanger emptyDrops scRNAseq 10X

11 months ago rocanja ▴ 60

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1.1k

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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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967

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RNAseq 10X

23 months ago wt215 • 0

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3.5k

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DropletUtils emptyDrops scRNA scRNAseq 10x

2.6 years ago • updated 2.5 years ago Peter Hickey ▴ 750

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1.3k

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DropletUtils emptyDrops 10x

updated 4.1 years ago by Aaron Lun ★ 28k • written 4.1 years ago by Peter Hickey ▴ 750

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1.8k

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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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3.2k

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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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8.2k

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single-cell 10X Cell calling DropletUtils cellranger

updated 6.0 years ago by Aaron Lun ★ 28k • written 6.0 years ago by xingxd16 ▴ 20

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Comment: Differential variance analysis - can i use deseq2 by Michael Love 43k

VST is valid for working with expression data on a variance stabilized scale, so yes. There are many papers that have used VST and then com…

Answer: Use of limma R package with targeted proteomics for DE analysis by Gordon Smyth 52k

It is usual to analyse log normalized values from Olink in limma. Just a straight log transformation should be sufficient. We find that `tr…

Comment: WGCNA by pammelala304 • 0

Thank you for your time and effort. I am so grateful! Play game [block blast](https://blockblastpuzzle.io) free.

Comment: Does anyone have the command to download all of the core_nt using blast_db_get() by Matthew Thornton ▴ 380

Ok. So I guess the core_nt is over 300Gb compressed. I can do it, but maybe it is better to just use ncbi-tools over the internet and just…

Comment: normalizatino of dna methylation EPIC data by user_bioinfo • 0

yes actually that's why I did, and its all good! thank you for your response

Votes

Comment: Different annotation packages (org.Mm.eg.db, EnsDb.Mmusculus.v79, BiomaRt) retu

Answer: normalizatino of dna methylation EPIC data

Answer: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?

Suggesting changing the "reply-to" field to the mailing list address.

Answer: UniProt.ws query for single UniRef90 ID takes several minutes

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