Bioconductor ATACseq

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235

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DiffBind DESeq2 ATACSeq

17 days ago • updated 14 days ago lonn • 0

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DiffBind ATACSeq

5 weeks ago Pierre Lindenbaum ▴ 10

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299

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DiffBind ATACSeq

3 months ago isaromero8888 • 0

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245

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DiffBind edgeR ATACSeq DESeq2

3 months ago Jawahar • 0

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258

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DiffBind ATACSeq

4 months ago inna.gur • 0

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655

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ATACseqQC ATACSeq

updated 9 weeks ago by danalvoronov ▴ 10 • written 5 months ago by jfmay • 0

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408

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dba.count DiffBind ATACSeq

updated 7 months ago by James W. MacDonald 65k • written 7 months ago by sophie.hfliu • 0

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837

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DiffBind ATACSeq

updated 9 months ago by Malcolm Cook ★ 1.6k • written 9 months ago by Nebat • 0

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1.2k

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ATACSeq

updated 8 months ago by Noah • 0 • written 20 months ago by Taeim • 0

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1.6k

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ATACSeq regionCounts csaw

updated 5 months ago by dineika.chandrananda • 0 • written 2.0 years ago by zgraytho88 • 0

10 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!

Votes

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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