Bioconductor EdgeR

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7.8k

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deseq2 edgeR rna-seq

updated 16 days ago by Elizabeth • 0 • written 8.8 years ago by gthm ▴ 30

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1.6k

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salmon edgeR tximport nf-core gene_counts

updated 15 days ago by i.atanasoai • 0 • written 15 months ago by mohammedtoufiq91 ▴ 10

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423

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edgeR DifferentialExpression

updated 21 days ago by ATpoint ★ 4.1k • written 25 days ago by nhaus ▴ 30

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420

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edgeR

17 days ago • updated 12 days ago Jonathan ▴ 10

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345

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limmaGUI edgeR limma

updated 19 days ago by Gordon Smyth 50k • written 24 days ago by Simran • 0

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327

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rna-seq edgeR

updated 13 days ago by Gordon Smyth 50k • written 26 days ago by Netanel • 0

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246

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edgeR DifferentialExpression

updated 28 days ago by James W. MacDonald 65k • written 29 days ago by Shaimaa Gamal • 0

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182

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subsettingdata edgeR designmatrix

updated 15 days ago by Gordon Smyth 50k • written 16 days ago by prity6459 • 0

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171

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fgsea edgeR

updated 1 day ago by Gordon Smyth 50k • written 1 day ago by gene_bioconductor ▴ 10

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171

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edgeR

updated 10 days ago by Gordon Smyth 50k • written 10 days ago by k___ ▴ 30

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169

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limma edgeR RNASeq

updated 15 days ago by Gordon Smyth 50k • written 16 days ago by Shaimaa Gamal • 0

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129

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DGEList edgeR

15 days ago prity6459 • 0

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RNASeqData edgeR

updated 1 day ago by Gordon Smyth 50k • written 1 day ago by z_bahari • 0

13 results • Page 1 of 1

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Answer: Once again a "Model matrix not full rank" by swbarnes2 ★ 1.3k

Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…

Answer: limma Intercept vs No-intercept models completely changing DMR results? by Gordon Smyth 50k

I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …

Answer: package goseq seems to be not available on the latest version of R by Gordon Smyth 50k

It is true that goseq isn't available for Bioc 3.19. That is because goseq depends on txbmaker, which is itself not yet available for Bioc…

Answer: limma Intercept vs No-intercept models completely changing DMR results? by James W. MacDonald 65k

This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…

Comment: CombineArrays for EPIC and EPIC V2 by Kim • 0

Thank you Tim, this is a great help in getting me started!

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Answer: limma Intercept vs No-intercept models completely changing DMR results?

Answer: CombineArrays for EPIC and EPIC V2

Answer: Too many significant genes when integrating gtex and tcga

Comment: Too many significant genes when integrating gtex and tcga

A: Print Differentially Expressed Exons From Dexseq Results

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