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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Methylation EPIC annotation - the logFC values represented as boxplots
probe to gene id logFC illuminahumanmethylationepicanno.ilm10b2.hg19 limma contrast matrix
updated 7.1 years ago by 68k • written 7.1 years ago by • 0
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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limma interaction contrasts
limma contrast matrix limma design matrix limma
updated 8.1 years ago by ★ 28k • written 8.1 years ago by ▴ 20
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3.8k
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limma: how to use pairing and adjust for covariates
limma limma-voom limma paired analysis limma contrast matrix
updated 8.1 years ago by ★ 28k • written 8.1 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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Limma-voom contrast confusion
limma limma voom limma design matrix limma contrast matrix limma paired analysis
updated 8.2 years ago by ★ 28k • written 8.2 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 8.2 years ago by 52k • written 8.2 years ago by ▴ 10
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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 8.5 years ago by ★ 28k • written 8.5 years ago by ▴ 840
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Limma design matrix for three-treatment crossover study
limma design matrix limma limma contrast matrix crossover study
updated 8.5 years ago by ★ 28k • written 8.5 years ago by ▴ 10
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Limma contrast for variables disease, gender and age
limma design matrix limma limma contrast matrix microarrays
8.8 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 9.1 years ago by 52k • written 9.1 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 9.1 years ago by 52k • written 9.1 years ago by • 0
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9.9k
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Limma design and contrast matrix
limma limma design matrix limma contrast matrix
9.1 years ago donny.dw • 0
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Comment: Differing results with DESeq2 by JKim • 0
My two cents. I think it would be more straightforward if you use cellmeans model. Have a look at [A guide to creating design matrices for …
Answer: CluserProfiler message "No gene can be mapped" by James W. MacDonald 68k
Your gene IDs are things like this: `Mpyr-NLJ1B.v3.hap1.scaffold1.g290550`, and the genes in your term2gene table are things like this: `Mp…
Answer: RNA-seq input to GRaNIE by James W. MacDonald 68k
This is [covered in the vignette.][1] [1]: https://bioconductor.org/packages/release/bioc/vignettes/GRaNIE/inst/doc/GRaNIE_packageDe…
Answer: Help using reduceSimMatrix with a custom annotation by sergisayolspuig ▴ 80
Hi there, `reduceSimMatrix()` expects a "GOALL" keytype in the OrgDb object when called with `children=TRUE` (which is the default for thi…
Answer: Analyzing TnSeq data with DESeq2 by cold.wolverine.arku • 0
That's a great use case of DESeq2! Even though it's not specifically tailored for TnSeq data, your approach to normalize and run explorator…
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Answer: ROAST for small sets
Answer: ROAST for small sets
A: conceptual question about FDR, FDR adjusted p-value and q-value
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