Showing : effect size • reset
1
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2
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cohen's d in edgeR
edger effect size cohen d
updated 7.3 years ago by ★ 29k • written 7.3 years ago by ▴ 370
8
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10
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6.1k
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Interpretation of confidence interval values for logFC returned from topTable function in limma with microarray dataset
limma topTable confidence interval effect size microarray
updated 9.9 years ago by 53k • written 9.9 years ago by ▴ 90
1
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6
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1.7k
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Effect size in non-standard linear model treatment experiment
limma microarray effect size
updated 10.3 years ago by ★ 29k • written 10.3 years ago by ▴ 10
7
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8
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5.6k
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Effect size similar to Cohen's d in limma
limma effect size
updated 3.3 years ago by • 0 • written 10.4 years ago by ▴ 240
10
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11
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9.8k
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Standard error and effect size from Limma
effect size Limma toptable Standard Error
updated 10.5 years ago by 53k • written 10.5 years ago by ▴ 20
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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…
Votes
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
A: deseq2 - paired samples in 2 sequencing types with very different library sizes
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