Bioconductor RNA Seq

Showing : RNA Seq • reset

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3.2k

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deseq2 mahattan plot RNA Seq

updated 4.1 years ago by bernatgel ▴ 150 • written 5.1 years ago by adeler001 • 0

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3.8k

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batch effect limma rna seq DE

updated 4.6 years ago by Steve Lianoglou ★ 13k • written 4.6 years ago by svlachavas ▴ 840

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908

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RNA seq cpm

updated 4.6 years ago by Kevin Blighe ★ 4.0k • written 4.6 years ago by isabel.pieterse • 0

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1.1k

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sgseq alternative splicing rna seq

updated 3 months ago by Sara • 0 • written 5.0 years ago by 116100016 • 0

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1.1k

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edger RNA Seq

updated 5.0 years ago by James W. MacDonald 67k • written 5.0 years ago by abf ▴ 30

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646

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rna seq

5.0 years ago adeler001 • 0

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969

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rna seq SGSeq Alternative splicing

updated 5.1 years ago by Leonard Goldstein ▴ 260 • written 5.1 years ago by 116100016 • 0

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667

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deseq2 likelihood ratio rna seq wald test

updated 5.2 years ago by Michael Love 43k • written 5.2 years ago by adeler001 • 0

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1.1k

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volcano plot rna seq

updated 5.3 years ago by Michael Love 43k • written 5.3 years ago by adeler001 • 0

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1.5k

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limma voom RNA Seq Time-course experiments

updated 5.4 years ago by Aaron Lun ★ 28k • written 5.5 years ago by mahes.muniandy • 0

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1.2k

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RNA seq wgcna

updated 5.5 years ago by Peter Langfelder ★ 3.0k • written 5.5 years ago by agustin.gonvi ▴ 20

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2.2k

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rna seq trimmomatic trimming adapter trimming paired analysis

5.6 years ago Mozart ▴ 30

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1.8k

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heatmap.2 hierarchical clustering microarray RNA seq DEG

6.8 years ago lawarde.ankita1 ▴ 30

13 results • Page 1 of 1

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Comment: Crossover design with limma by SamGG ▴ 360

IMHO, here are the missing annotations treatmentdrug_orderDrugPlac - treatmentplacebo_orderDrugPlac, # effect of drug for the Drug…

Answer: What type of counts data to import for performing Isoform analysis in edgeR by ATpoint ★ 4.5k

You don't need any of these files. You need the `catchSalmon` function which reads `quant.sf` and the inferential (Bootstrap/Gibbs) replica…

Comment: makeContrastsDream for Interaction by abadgerw • 0

Thank you! I will try this out.

Comment: Merge Replicates vs Mixed Model by abadgerw • 0

Thanks, @gabrielhoffman The data is actually proteomics so it is intensity data which is why I did not use voom but rather ran ebayes wi…

Comment: ANOVA like approach of edgeR by Gordon Smyth 52k

To identify common upregulated or downregulated genes, you would need to test for media condition contrasts for each cell type separately, …

Votes

Comment: Crossover design with limma

Answer: DESeq2 normalization vs VST vs rlog

Comment: makeContrastsDream for Interaction

Answer: Limma- Print-tip loess normalisation-printer layout information does not match M

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Popular Question to Marek Gierlinski ▴ 30

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