Bioconductor Chipseq

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DiffBind macs2 chipseq

2 days ago yvonneh • 0

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119

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chipseq

updated 18 days ago by James W. MacDonald 65k • written 18 days ago by zhulin • 0

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169

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ChIPSeq annotation ChIPpeakAnno

12 weeks ago nilanjanamani88 • 0

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397

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chipseq DifferentialMethylation DESeq2

updated 3 months ago by Michael Love 41k • written 3 months ago by rebw25 • 0

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176

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bSubControl ChIPSeq DiffBind

3 months ago frueher • 0

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332

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csaw ChIPseq DiffBind

5 months ago jared.andrews07 ▴ 30

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449

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DiffBind chipseq

updated 7 months ago by James W. MacDonald 65k • written 7 months ago by lin.pei26 • 0

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285

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ChIPpeakAnno ChIPSeq MotifDiscovery

7 months ago franciscrick41 • 0

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1.1k

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ChIPpeakAnno ChIPSeq

updated 8 months ago by James W. MacDonald 65k • written 8 months ago by Jerina ▴ 10

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3.0k

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DiffBind chipseq

updated 9 months ago by Rory Stark ★ 5.2k • written 9 months ago by ANAMIKA • 0

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1.0k

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ChIPSeq DiffBind

updated 11 months ago by Rory Stark ★ 5.2k • written 11 months ago by lin.pei26 • 0

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1.2k

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diffbind chipseq

updated 12 months ago by lin.pei26 • 0 • written 4.7 years ago by danielaperry2015 • 0

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1.8k

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DiffBind R chipseq

updated 4 months ago by Rory Stark ★ 5.2k • written 6.6 years ago by kyliecode • 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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