Bioconductor RNA seq

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4.0k

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deseq2 mahattan plot RNA Seq

updated 4.9 years ago by bernatgel ▴ 150 • written 5.9 years ago by adeler001 • 0

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4.8k

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batch effect limma rna seq DE

updated 5.4 years ago by Steve Lianoglou ★ 13k • written 5.4 years ago by svlachavas ▴ 840

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1.4k

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RNA seq cpm

updated 5.4 years ago by Kevin Blighe ★ 4.0k • written 5.4 years ago by isabel.pieterse • 0

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1.4k

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sgseq alternative splicing rna seq

updated 13 months ago by Sara • 0 • written 5.8 years ago by 116100016 • 0

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1.3k

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edger RNA Seq

updated 5.8 years ago by James W. MacDonald 68k • written 5.8 years ago by abf ▴ 30

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788

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rna seq

5.8 years ago adeler001 • 0

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1.3k

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rna seq SGSeq Alternative splicing

updated 5.9 years ago by Leonard Goldstein ▴ 260 • written 5.9 years ago by 116100016 • 0

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786

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deseq2 likelihood ratio rna seq wald test

updated 6.0 years ago by Michael Love 43k • written 6.0 years ago by adeler001 • 0

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1.3k

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volcano plot rna seq

updated 6.1 years ago by Michael Love 43k • written 6.1 years ago by adeler001 • 0

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1.8k

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limma voom RNA Seq Time-course experiments

updated 6.2 years ago by Aaron Lun ★ 29k • written 6.2 years ago by mahes.muniandy • 0

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1.6k

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RNA seq wgcna

updated 6.3 years ago by Peter Langfelder ★ 3.0k • written 6.3 years ago by agustin.gonvi ▴ 20

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2.6k

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rna seq trimmomatic trimming adapter trimming paired analysis

6.4 years ago Mozart ▴ 30

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2.1k

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heatmap.2 hierarchical clustering microarray RNA seq DEG

7.6 years ago lawarde.ankita1 ▴ 30

13 results • Page 1 of 1

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Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design by Gordon Smyth 53k

Normalization or filtering are never done for subsets of samples in any limma or edgeR analysis. These things must always be done globally.

Answer: DESeq2 interactions by swbarnes2 ★ 1.4k

The simpler way to do the first four comparisons is to make a new column in colData that is temp_pollution, and specify that column alone a…

Comment: How to construct a BSgenome object from a custom genome assembly using BSgenomeF by James W. MacDonald 68k

You are. The reason I pointed you to `forgeBSgenomeDataPkgFromTwobitFile` is because it's much simpler, doesn't require a seed file, and is…

Comment: How to construct a BSgenome object from a custom genome assembly using BSgenomeF by mat149 ▴ 80

I've tried the following, but I must be missing something: setwd("C:\\Users\\....\\wd\\dump\\seqs_srcdir") e122<-readDNA…

Comment: readBam vs read_bam_insert_metrics by rtrivedi1 ▴ 10

Thanks for the answer.

Votes

Comment: How to construct a BSgenome object from a custom genome assembly using BSgenomeF

Answer: Guidance on limma for pseudobulk scRNA-seq with multi-factor design

Answer: How to left_join a tidySummarizedExperiment with a GRanges object by seqnames an

Answer: Limpa Pipeline Order

A: How barcode-plot enrichment is calculated?

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