Bioconductor Rory stark

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CHIPQC Diffbind chipseq rory stark Thomas Carroll

updated 2.6 years ago by arisarkar88 ▴ 40 • written 4.9 years ago by bioinfouser2 ▴ 10

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diffbind rory stark chip seq

updated 4.3 years ago by Rory Stark ★ 5.2k • written 4.9 years ago by bioinfouser2 ▴ 10

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diffbind Rory Stark coordinate

updated 5.0 years ago by Rory Stark ★ 5.2k • written 5.0 years ago by Guandong Shang ▴ 40

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diffbind rory stark

7.6 years ago andrew.gehrke • 0

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rory stark

8.2 years ago • updated 7.7 years ago mforoo1 • 0

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diffbind chipseq atac-seq rory stark

updated 7.9 years ago by Rory Stark ★ 5.2k • written 7.9 years ago by andrew.gehrke • 0

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Rory Stark diffbind TMM edgeR chipseq

updated 8.7 years ago by Rory Stark ★ 5.2k • written 8.8 years ago by akdess • 0

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Comment: how many significant figures are there in DESeq2 output by ATpoint ★ 4.7k

If you want consistency then use a fixed software environment like Docker, wirh fixed code and thresholds that make sense. Rounding to near…

Comment: Compare TCGA-PAAD with GTEx gene expression by Jane • 0

why aren't there any answers?

Comment: Too many significant genes when integrating gtex and tcga by Jane • 0

I encountered the same issue: too many DEGs after limma analysis. It is sad that until today we can still see the paper published where GTE…

Comment: how many significant figures are there in DESeq2 output by Matthew McCormack ▴ 180

Thank you for your reply. It is good to know that cutoff of 0.05 means less than 0.05. My concerns are about consistency and reproducibili…

Comment: DiffBind edgeR normalization --- why are the normalization factors all equal to by ATpoint ★ 4.7k

No, normalization factors from edgeR rather than size factors from DESeq2 are not proportional, it's a different concept and implementation…

Votes

A: Unbalanced experiment with multiple samples from each patient.

Unbalanced experiment with multiple samples from each patient.

Answer: Vertical line at A=0, nothing else, on MA plot

Answer: GSVA Error Code "Calling gsva(expr=., gset.idx.list=., method=., ...) is defunct

Answer: Group-specific condition effects with individuals nested: matrix is not full ra

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Popular Question to Matthew McCormack ▴ 180

Popular Question to James W. MacDonald 68k