Showing : lme4 • reset
0
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limma vs lme4: definition of "random effects"
limma lme4 mixed
3.2 years ago leandro • 0
3
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8
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2.7k
views
Results from variancePartition not matching those from lme4
variancepartition lme4 mixedmodel
updated 6.3 years ago by ▴ 170 • written 6.4 years ago by • 0
4
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2
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1.4k
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Two-way interaction, linear redundancy
limma caret lm lmer lme4
updated 6.5 years ago by ★ 29k • written 6.5 years ago by ▴ 110
0
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5
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1.4k
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selecting the right package for complex designs
limma edger lme4
updated 8.9 years ago by ★ 29k • written 8.9 years ago by • 0
12
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2
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4.2k
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How does edgeR compare to lme4?
rna-seq edger mixed model random effects lme4
updated 9.6 years ago by 53k • written 9.6 years ago by ▴ 80
0
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6
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4.1k
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Analyzing pre/post (longitudinal) data using limma/lme4 with adjustment for continuous covariates
illumina450k limma lme4 lmer
updated 9.7 years ago by ★ 29k • written 9.7 years ago by • 0
6 results • Page 1 of 1
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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…
Answer: limpa-blank normalization and Spectronaut's PTM stoichiometry by Gordon Smyth 53k
The short answer is that limpa reads standard feature-level intensities from Spectronaut or other quantifications tools. limpa is designed …
Comment: Question about the filterByExpr function inputs in edgeR by mohammedtoufiq91 ▴ 10
@gordonsmyth Noted, thank you very much.
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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