Bioconductor NMF

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5.5k

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NMF Biobase

updated 3.6 years ago by shepherl 4.3k • written 3.7 years ago by Abhishek • 0

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2.5k

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NMF scater

5.3 years ago lirongrossmann ▴ 50

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713

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NMF ZeiselBrainData

5.5 years ago sofia.puvogel • 0

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2.0k

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MutationalPatterns NMF

6.7 years ago TRASA • 0

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4.2k

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somaticsignatures NMF

updated 7.2 years ago by Xin • 0 • written 7.5 years ago by aslam.mohammed398 • 0

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1.2k

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NMF log2 classification bioconductor

7.6 years ago Seymoo • 0

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1.5k

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NMF somaticsignatures R 3.4.3

updated 7.9 years ago by shepherl 4.3k • written 7.9 years ago by samuel.fux • 0

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3.9k

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somaticsignatures NMF

updated 8.3 years ago by grimmmmer • 0 • written 8.9 years ago by ns • 0

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3.1k

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deseq2 combat outliers NMF

updated 8.6 years ago by Michael Love 43k • written 8.6 years ago by noname • 0

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1.5k

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NMF minfi

9.9 years ago yura.grabovska ▴ 30

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1.6k

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affy coefmap nmf

updated 10.0 years ago by James W. MacDonald 68k • written 10.0 years ago by thrabe • 0

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2.2k

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sva somaticsignatures batch effect nmf

updated 10.1 years ago by Jeff Leek ▴ 650 • written 10.1 years ago by kw10 • 0

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2.0k

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NMF bioconductor R

updated 10.5 years ago by Martin Morgan 25k • written 10.5 years ago by Deepak Tanwar ▴ 10

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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