Showing : limma contrast matrix • reset
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Creating a correct limma model with respect to contrast matrix and design matrix
limma limma contrast matrix limma design matrix
updated 6.6 years ago by ★ 28k • written 6.6 years ago by • 0
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4
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Methylation EPIC annotation - the logFC values represented as boxplots
probe to gene id logFC illuminahumanmethylationepicanno.ilm10b2.hg19 limma contrast matrix
updated 7.0 years ago by 68k • written 7.0 years ago by • 0
4
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4
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edgeR design matrix and contrasts: how to make contrast between groups that aren't shown in the design matrix columns?
edger design and contrast matrix contrast limma contrast matrix limma
updated 7.2 years ago by 52k • written 7.2 years ago by ▴ 20
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Correct contrast for testing multi-level interaction effect in limma using combined factors design matrix
limma contrast matrix limma design matrix limma rna-seq limma voom
updated 8.0 years ago by ★ 28k • written 8.0 years ago by • 0
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8
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limma interaction contrasts
limma contrast matrix limma design matrix limma
updated 8.0 years ago by ★ 28k • written 8.0 years ago by ▴ 20
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15
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3.7k
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limma: how to use pairing and adjust for covariates
limma limma-voom limma paired analysis limma contrast matrix
updated 8.0 years ago by ★ 28k • written 8.0 years ago by ▴ 10
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6
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Multiple testing limma contrasts
limma limma voom limma contrast matrix multiple testing correction
updated 8.1 years ago by 68k • written 8.1 years ago by ▴ 10
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2.4k
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Limma-voom contrast confusion
limma limma voom limma design matrix limma contrast matrix limma paired analysis
updated 8.1 years ago by ★ 28k • written 8.1 years ago by ▴ 10
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5
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Limma: paired multifactor analysis
limma limma design matrix limma contrast matrix limma paired analysis limma-voom
updated 8.1 years ago by 52k • written 8.1 years ago by ▴ 10
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1.1k
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Help with limma contrast/design matrices
limma contrast matrix
8.4 years ago mat149 ▴ 80
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1.7k
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contrast matrix design for a comparison (trend) of drug concentrations
limma contrast matrix affymetrix microarrays limma
updated 8.4 years ago by ★ 28k • written 8.4 years ago by ▴ 840
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2
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1.6k
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Limma design matrix for three-treatment crossover study
limma design matrix limma limma contrast matrix crossover study
updated 8.4 years ago by ★ 28k • written 8.4 years ago by ▴ 10
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Limma contrast for variables disease, gender and age
limma design matrix limma limma contrast matrix microarrays
8.7 years ago miyuki_iii ▴ 10
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limma: model/contrast matrix for 2x3 factorial design
limma multifactorial design design and contrast matrix limma design matrix limma contrast matrix
updated 9.0 years ago by 52k • written 9.0 years ago by • 0
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5
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1.5k
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Question about contrast matrix using limma
limma rna-seq limma contrast matrix
updated 9.0 years ago by 52k • written 9.0 years ago by • 0
2
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4
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9.7k
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Limma design and contrast matrix
limma limma design matrix limma contrast matrix
9.0 years ago donny.dw • 0
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Comment: Annotation package for Manduca sexta by GA ▴ 10
Thank you!
Comment: Improving performance of edgeR and limma while adjusting for multiple confounder by ATpoint ★ 4.8k
If 2 minutes is inacceptable to you then you can still fall back to limma-trend which should give a dramatic speedup and finish in seconds.…
Comment: getBM from biomaRt inconsistencies found with .gtf files across multiple species by Mike Smith ★ 6.6k
Great, thanks for the update from Ensembl. So the most relevant part of 'Location: Scaffold HG1277_PATCH: 137,021-141,806 forward strand' …
Answer: Improving performance of edgeR and limma while adjusting for multiple confounder by Gordon Smyth 52k
We recommend that you use voomLmFit() instead of voom+lmFit. We are pretty proud of the speed of glmQLFit and voom, and we hadn't expected…
Answer: Merging EPICV1 and V2 betas by James W. MacDonald 68k
It appears that [SeSAMe][1] has functions meant to do that sort of thing. [1]: https://bioconductor.org/packages/release/bioc/vignet…
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Looking for equivalent EPIC chip v1 vs. v2 annotation variables
Properly constructing a hypergeometric test
A: Is logFC a log2 fold change or some other base in scran::findMarkers
Comment: Error in retrieving clinical data
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