Bioconductor Rrbs

Showing : rrbs • reset

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1.6k

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edgeR model-selection RRBS mixture-experiment

4.8 years ago ingerslev • 0

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1.3k

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MethylCC RRBS cord blood

5.5 years ago weichen-cls • 0

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1.1k

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Biseq Methylation DMP DMR RRBS

5.5 years ago i.s.castanho • 0

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1.0k

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biseq betaRegression RRBS Methylation

5.8 years ago i.s.castanho • 0

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3.0k

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edgeR rrbs

updated 7.0 years ago by Gordon Smyth 53k • written 7.0 years ago by ingerslev • 0

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3.4k

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methykit rrbs

updated 7.7 years ago by Mike Smith ★ 6.6k • written 7.7 years ago by bekah ▴ 40

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2.1k

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edgeR methyation RRBS

updated 8.0 years ago by Gordon Smyth 53k • written 8.0 years ago by osa.zuta ▴ 40

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1.5k

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biseq RRBS betaregression

8.8 years ago l.eijssen • 0

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2.6k

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sva RRBS

updated 8.9 years ago by Jeff Leek ▴ 650 • written 8.9 years ago by mrodrigues.fernanda ▴ 10

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2.3k

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rrbs batch effect methylation sva

updated 9.3 years ago by dashbrook1 • 0 • written 10.5 years ago by GFM ▴ 20

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2.0k

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limma rrbs bsseq

updated 9.6 years ago by Aaron Lun ★ 29k • written 9.6 years ago by nhejazi • 0

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2.7k

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biseq RRBS SAAP-BS coverage

10.7 years ago maria.maqueda • 0

12 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