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Testing Interactions without an interaction term in the design formula
deseq2 interactions written 6 months ago by colaneri • 30 • updated 6 months ago by Michael Love ♦ 25k
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DESeq2 lfcShrink with interactions
deseq2 interactions lfcshrink written 8 months ago by hannepainter • 0 • updated 8 months ago by Michael Love ♦ 25k
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Splitting a dataset and control sample batch
deseq2 interactions batch effect correction grouping variable written 12 months ago by mat.lesche • 70 • updated 12 months ago by Michael Love ♦ 25k
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RNA-seq time course experiment - DESEq2 Contrasts
deseq2 interactions contrast rna-seq written 13 months ago by Maithê Barros • 10 • updated 13 months ago by Michael Love ♦ 25k
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DESeq2 multifactor design, interpreting interaction names
deseq2 interactions multifactorial design written 14 months ago by fargo • 0 • updated 14 months ago by Michael Love ♦ 25k
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Circumventing statistical non-significance on a triple interaction using edgeR
rnaseq edger interactions makecontrasts written 15 months ago by David Rengel • 70 • updated 15 months ago by Aaron Lun • 25k
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Interactions and contrasts for DE analysis in ballgown
rnaseq R interactions de ballgown written 16 months ago by khill33 • 0 • updated 16 months ago by James W. MacDonald ♦ 51k
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Trying to simplify Interaction analysis with edger, and propably failing to do so?
rnaseq edger interactions differential gene expression multiple factor design written 18 months ago by David Rengel • 70
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Using Effect Coding or Orthogonal Coding instead of dummy coding in DESeq2?
deseq2 interactions multiple factor design orthogonal coding effect coding written 22 months ago by vlaufer • 0 • updated 22 months ago by Peter Langfelder • 2.2k
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stimulation effects between wild-type and knockout cells using deseq
deseq2 interactions multiple factor design design matrix written 3.9 years ago by Assa Yeroslaviz • 1.4k • updated 23 months ago by Michael Love ♦ 25k
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Interaction with DESeq2 via DiffBind
diffbind deseq2 interactions written 24 months ago by rbronste • 60 • updated 23 months ago by Rory Stark • 2.8k
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Testing three-way interactions in DESeq2
rnaseq deseq2 interactions rna-seq written 2.0 years ago by red_bricks • 20 • updated 2.0 years ago by Michael Love ♦ 25k
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Differential expression analysis desgin
limma edger deseq2 differential expression interactions written 2.0 years ago by kendralec • 10 • updated 2.0 years ago by Gordon Smyth ♦ 38k
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DESEq2 contrast statement syntax and design statement question
deseq2 interactions contrast written 2.2 years ago by grashow • 0 • updated 2.2 years ago by Michael Love ♦ 25k
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DESeq2 lfcShrink with interactions
deseq2 interactions logfoldchange written 2.2 years ago by rrcutler • 50 • updated 2.2 years ago by Michael Love ♦ 25k
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Limma: Contrasts with interaction term
limma interactions multiple factor design continuous term written 2.6 years ago by huma • 10 • updated 2.6 years ago by Aaron Lun • 25k
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[Limma] Testing continuous variable with interaction
limma voom interactions confounding continuous written 3.1 years ago by lanhuong • 20
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DESeq2 3-fatcor design and different interaction terms
rnaseq deseq2 bioconductor interactions multifactorial design written 3.2 years ago by c.evang • 0 • updated 3.2 years ago by Michael Love ♦ 25k
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Seeking confirmation on manually setting contrasts for a 3-factor design in DESeq2 with multiple interaction terms
deseq2 design and contrast matrix interactions contrast multiple factor design written 3.5 years ago by piensaglobalmente • 10 • updated 3.5 years ago by Michael Love ♦ 25k
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Interaction terms in DESeq2 contrasts
deseq2 design and contrast matrix interactions contrast written 3.5 years ago by dwzhang.wisc • 20
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edgeR glmLRT and interaction effect: an example
edger interactions rna-seq glmlrt written 3.5 years ago by David Rengel • 70 • updated 3.5 years ago by Gordon Smyth ♦ 38k
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How to make sense of the fold change values in the interaction results object.
deseq2 interactions logfoldchange written 3.6 years ago by colaneri • 30 • updated 3.6 years ago by Michael Love ♦ 25k
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DESeq2 multifactor experiment design
deseq2 interactions contrast lrt multifactor written 3.7 years ago by rclaire • 0
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DESeq2 multiple interaction terms 3-factor design
deseq deseq2 interactions multiple factor design written 3.8 years ago by Stephen Turner • 270 • updated 3.8 years ago by Michael Love ♦ 25k
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Contrast All Interaction Effects in DESeq2 in current version (1.10.1)
deseq2 interactions differential gene expression written 4.0 years ago by marcus.stoiber • 0
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