Bioconductor InteractionSet

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DESeq2 multifactorialdesign interaction InteractionSet

updated 7 months ago by Michael Love 43k • written 7 months ago by Integrative • 0

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2.9k

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DEGcomparison DESeq2 InteractionSet pvalue

23 months ago paria.alipour • 0

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InteractionSet GInteractions

2.0 years ago Sarah ▴ 10

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943

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InteractionSet subsetByOverlaps GenomicInteractions

2.5 years ago Laureano Tomás-Daza ▴ 10

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1.4k

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InteractionSet BuildReport

3.0 years ago martin.grigorov ▴ 10

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InteractionSet

4.5 years ago noag • 0

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S4 Rcpp InteractionSet IRanges Rle

updated 5.6 years ago by Aaron Lun ★ 29k • written 5.6 years ago by lklei001 • 0

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diffHic HiC InteractionSet

updated 5.7 years ago by Aaron Lun ★ 29k • written 5.7 years ago by girardot • 0

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genomicinteractions gviz interactionset

updated 7.1 years ago by liz.ingsimmons ▴ 140 • written 7.1 years ago by ferbecneu • 0

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1.8k

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interactionset granges

updated 7.5 years ago by Aaron Lun ★ 29k • written 7.5 years ago by Vinicius Henrique da Silva ▴ 40

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1.8k

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diffhic hic interactionset contactmatrix inflate

updated 8.2 years ago by Aaron Lun ★ 29k • written 8.2 years ago by hwick1 ▴ 20

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2.0k

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diffhic interactionset

9.5 years ago Vivek.b ▴ 100

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InteractionSet structural variants

updated 9.5 years ago by Aaron Lun ★ 29k • written 9.5 years ago by tangming2005 ▴ 200

13 results • Page 1 of 1

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Comment: DESeq2 - how many surrogate variables from svaseq, use of lfcshrink by ja569116 • 0

Hi @atpoint Thanks for the information. Could you please expand on when to use adjusted p-values vs nominal p-values. My understanding was …

Answer: limpa analysis advice by Gordon Smyth 53k

It is actually very hard to estimate the DPC from observed data, because the curve is function of unobserved intensities rather than a func…

Answer: When to use edgeR or limma by Gordon Smyth 53k

The short answer is that we generally prefer edgeR for applications with lots of small counts and limma for complex designs with random eff…

Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry by Gordon Smyth 53k

I updated the above answer today.

Answer: When to use edgeR or limma by James W. MacDonald 68k

I would use edgeR's quasi-likelihood model for any analysis with a smaller number of observations (like 3 vs 3 or similar), but if you have…

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Answer: When to use edgeR or limma

A: deseq2 - paired samples in 2 sequencing types with very different library sizes

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Popular Question to Lluís Revilla Sancho ▴ 760