Bioconductor RNA-Seq

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628

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RNA-Seq featureCounts Rsubread

updated 10 weeks ago by Gordon Smyth 52k • written 10 weeks ago by Arindam ▴ 80

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28k

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deseq2 rna-seq DEGs cooks cutoff

written 6.3 years ago by aishu.jp ▴ 30

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1.3k

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RNA-seq DESeq2 volcanoplot

updated 5 months ago by Michael Love 43k • written 5 months ago by nramakr ▴ 10

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486

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DESeq2 pvalue RNA-Seq

6 months ago paul.meraner • 0

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387

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biologicalnetworkanalysis genomes RNA-Seq co-expression wgcna

7 months ago Fernanda • 0

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776

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RNASeqData DESeq2 RNA-Seq RNASeq

updated 10 months ago by James W. MacDonald 68k • written 10 months ago by Ben ▴ 50

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859

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DESeq2 PCAplot RNA-Seq DesignModel

updated 11 months ago by Michael Love 43k • written 11 months ago by shaunpeterson • 0

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832

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rna-seq duplicateCorrelation limma voom

11 months ago Dylan.Sheerin • 0

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1.7k

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RNA-seq DESeq2

updated 8 weeks ago by Jane • 0 • written 12 months ago by Reza • 0

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4.5k

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RNA-seq featureCounts ht-seq

written 4.8 years ago by Arindam ▴ 80

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7.4k

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WGCNA RNA-seq ModuleMembership Network Hub gene

updated 16 days ago by bicecac533 • 0 • written 4.7 years ago by Arindam ▴ 80

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1.1k

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noiseq RNA-seq quality control

updated 11 months ago by baptiste.bidon • 0 • written 5.7 years ago by Arindam ▴ 80

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2.6k

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mast single-cell rna-seq differential analysis

updated 29 days ago by achoppe ▴ 10 • written 7.3 years ago by shao ▴ 100

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1.9k

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deseq2 random effects batch effects RNA-seq rna-seq

updated 5 days ago by donnycrimson • 0 • written 7.8 years ago by Dipro • 0

14 results • Page 1 of 1

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Comment: Cannot extract size factor from DESeq2 analysis by s.malik • 0

Dear Mike, using tximeta and following code, is this fine to extract normalized counts after `sizeFactors(dds)` gives NULL? `dds <- DESeq…

Comment: Design formula for circadian time-course data for vst() function by Vishnu • 0

Thank you so much for your reply.

Comment: Analyzing TnSeq data with DESeq2 by Tom • 0

[Doncaster Locksmith][1] delivers trusted, efficient security services tailored to your needs. Analyzing TnSeq data with DESeq2 may uncover…

Answer: Design formula for circadian time-course data for vst() function by ATpoint ★ 4.8k

This was asked before: https://support.bioconductor.org/p/9148734/#9148812 Take-home message is that influence is minor, as you see your…

Comment: Filtering after DESeq by caroline.zanchi • 0

... I did it. It does filter out quite a bit of genes : ``` keep <- filterByExpr(dds, group="host_treatment_generation",min.count = 10, mi…

Votes

Comment: Filtering after DESeq

A: Normalized counts from DESeq2 results in similar but not equal total read count?

A: DESeq2: Different Dispersions for different sample groups

A: Contrasts & coefficients in limma

Answer: How to formulate 2 factor nested design in DESeq2

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