Showing : interactions • reset
0
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2
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425
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DESeq2 interaction terms in 2x2x2 factorial design
Interactions design Multifactorial DESeq2
updated 9 months ago by ★ 1.1k • written 9 months ago by • 0
0
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1
reply
199
views
Account for parent cell line when comparing isogenic mutants
interactions design DESeq2
updated 9 months ago by 37k • written 9 months ago by • 0
0
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2
replies
292
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results() function and finding the difference of differences
interactions DESeq2
9 months ago Nayrouz • 0
0
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3
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316
views
Analysis of interactions in RNAseq data: LRT vs 2 way ANOVA
DESeq2 LRT two-way-ANOVA interactions
updated 11 months ago by 37k • written 11 months ago by • 0
1
vote
2
replies
690
views
How to do limma on 3 factors with multiple levels (e.g 3-way anova) on microarray log values
interactions 3factors limma Microarray
18 months ago Dan ▴ 10
2
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3
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468
views
DeSEQ2 factor effect without interaction effect
DESeq2 Interactions
19 months ago • updated 18 months ago cossardg ▴ 10
2
votes
3
replies
2.1k
views
DESeq2: Multiple Comparisons with Different Conditions and Replicates
Interactions DESeq2 Design
updated 19 months ago by 3.6k • written 19 months ago by ▴ 10
6
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8
replies
1.3k
views
Interaction with DESeq2 via DiffBind
diffbind deseq2 interactions
updated 19 months ago by • 0 • written 4.8 years ago by ▴ 60
3
votes
3
replies
563
views
Problem to understand Interactions at any time
RNA-seq edgeR interactions
updated 22 months ago by 46k • written 22 months ago by ▴ 10
1
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5
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437
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Testing Interactions without an interaction term in the design formula
deseq2 interactions
updated 3.4 years ago by 37k • written 3.4 years ago by ▴ 30
0
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4
replies
1.0k
views
DESeq2 lfcShrink with interactions
deseq2 lfcShrink interactions
updated 3.5 years ago by 37k • written 3.5 years ago by • 0
0
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5
replies
670
views
Splitting a dataset and control sample batch
deseq2 interactions batch effect correction grouping variable
updated 3.9 years ago by 37k • written 3.9 years ago by ▴ 80
0
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5
replies
711
views
RNA-seq time course experiment - DESEq2 Contrasts
deseq2 rna-seq interactions contrast
updated 3.9 years ago by 37k • written 3.9 years ago by ▴ 10
0
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3
replies
672
views
DESeq2 multifactor design, interpreting interaction names
deseq2 interactions multifactorial design
updated 4.0 years ago by 37k • written 4.0 years ago by • 0
0
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2
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520
views
Circumventing statistical non-significance on a triple interaction using edgeR
rnaseq edgeR makecontrasts interactions
updated 4.1 years ago by ★ 27k • written 4.1 years ago by ▴ 70
0
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1
reply
548
views
Interactions and contrasts for DE analysis in ballgown
ballgown R RNAseq DE interactions
updated 4.2 years ago by 60k • written 4.2 years ago by • 0
1
vote
5
replies
700
views
Trying to simplify Interaction analysis with edger, and propably failing to do so?
rnaseq edger interactions multiple factor design differential gene expression
4.4 years ago David Rengel ▴ 70
0
votes
1
reply
802
views
Using Effect Coding or Orthogonal Coding instead of dummy coding in DESeq2?
deseq2 multiple factor design interactions orthogonal coding effect coding
updated 4.7 years ago by ★ 2.7k • written 4.7 years ago by • 0
0
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2
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1.0k
views
stimulation effects between wild-type and knockout cells using deseq
multiple factor design interactions design matrix deseq2
updated 4.8 years ago by 37k • written 6.7 years ago by ★ 1.5k
8
votes
3
replies
1.7k
views
Testing three-way interactions in DESeq2
deseq2 rna-seq rnaseq interactions
updated 4.8 years ago by 37k • written 4.8 years ago by ▴ 50
5
votes
4
replies
812
views
Differential expression analysis desgin
differential expression deseq2 edger interactions limma
updated 4.9 years ago by 46k • written 4.9 years ago by ▴ 10
0
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2
replies
1.2k
views
DESEq2 contrast statement syntax and design statement question
deseq2 interactions contrast
updated 5.0 years ago by 37k • written 5.0 years ago by ▴ 10
3
votes
7
replies
2.1k
views
DESeq2 lfcShrink with interactions
deseq2 interactions logfoldchange
updated 5.0 years ago by 37k • written 5.0 years ago by ▴ 70
4
votes
1
reply
2.0k
views
Limma: Contrasts with interaction term
limma interactions continuous term multiple factor design
updated 5.4 years ago by ★ 27k • written 5.4 years ago by ▴ 10
6
votes
3
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1.8k
views
[Limma] Testing continuous variable with interaction
limma voom continuous interactions confounding
5.9 years ago lanhuong ▴ 20
3
votes
5
replies
3.5k
views
DESeq2 3-fatcor design and different interaction terms
deseq2 bioconductor rnaseq multifactorial design interactions
updated 6.0 years ago by 37k • written 6.0 years ago by ▴ 10
2
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6
replies
1.3k
views
Seeking confirmation on manually setting contrasts for a 3-factor design in DESeq2 with multiple interaction terms
deseq2 multiple factor design interactions design and contrast matrix contrast
updated 6.3 years ago by 37k • written 6.3 years ago by ▴ 10
2
votes
4
replies
4.1k
views
Interaction terms in DESeq2 contrasts
deseq2 interactions design and contrast matrix contrast
6.4 years ago dwzhang.wisc ▴ 20
3
votes
7
replies
3.1k
views
edgeR glmLRT and interaction effect: an example
rna-seq edger glmlrt interactions
updated 6.4 years ago by 46k • written 6.4 years ago by ▴ 70
2
votes
5
replies
1.3k
views
How to make sense of the fold change values in the interaction results object.
deseq2 logfoldchange interactions
updated 6.4 years ago by 37k • written 6.4 years ago by ▴ 30
2
votes
5
replies
4.3k
views
DESeq2 multifactor experiment design
deseq2 LRT multifactor contrast interactions
6.6 years ago • updated 6.5 years ago rclaire ▴ 20
13
votes
6
replies
5.7k
views
DESeq2 multiple interaction terms 3-factor design
deseq2 deseq interactions multiple factor design
updated 6.6 years ago by 37k • written 6.6 years ago by ▴ 290
1
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5
replies
2.4k
views
Contrast All Interaction Effects in DESeq2 in current version (1.10.1)
DESeq2 differential gene expression interactions
6.8 years ago marcus.stoiber • 0
0
votes
2
replies
802
views
R package for molecule interactions?
r package function interactions
6.8 years ago amyfm ▴ 10
5
votes
3
replies
4.4k
views
Calculating contrasts for continuous variable anad interaction effect in Limma
limma design matrix design and contrast matrix continuous interactions
updated 6.8 years ago by ★ 27k • written 6.8 years ago by ▴ 20
0
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1
reply
1.3k
views
DESeq2 design issues - specifically understanding contrasts & interactions from page 23-25 of the DESeq2 manual
deseq2 design and contrast matrix interactions contrast
updated 6.9 years ago by 37k • written 6.9 years ago by ▴ 20
2
votes
8
replies
2.6k
views
confusing on the interaction and betaprior in DESeq2.
deseq2 interactions contrast
7.2 years ago shao ▴ 100
0
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1
reply
1.0k
views
Interaction of fixed effects in DESeq2
deseq2 interactions
updated 7.2 years ago by 37k • written 7.2 years ago by • 0
3
votes
4
replies
2.3k
views
RNAseq analysis using edgeR - specifying and testing full factorial 2x2x4 model, main effects and interactions.
edger multiple factor design interactions
updated 7.3 years ago by ★ 27k • written 7.3 years ago by • 0
1
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0
replies
1.6k
views
Job: Bioinformatics / Biostatistics in genetic interaction analysis
high-throughput screening interactions genetics jobs image analysis Job
7.3 years ago Bernd Fischer ▴ 550
5
votes
11
replies
9.3k
views
DESeq2: with multiple factors and interaction terms won't show all effects
deseq2 multiple factor design contrast interactions
updated 7.5 years ago by 37k • written 7.5 years ago by ▴ 80
0
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3
replies
1.6k
views
DESeq2: interaction controlling for genetic effects
deseq interactions
updated 7.7 years ago by 37k • written 7.7 years ago by ▴ 10
1
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7
replies
2.1k
views
Shiny app for RefNet, PSICQUIC: annotated protein/protein interactions
shiny network interactions
7.8 years ago pshannon ▴ 90
43 results • Page 1 of 1
Recent ...
Replies
Comment: Retrieve gene summary start/end in biomart query by rbenel ▴ 20
Hi Mike, I have tried the query without the transcript, and I believe there are cases where I will receive unique transcript start/end si…
Comment: MMDiff2 memory issues by e.iich • 0
running against a similar issue. Have you found any solutions?
Answer: mapToAlignments_issue by Hervé Pagès 15k
> I would expect in case of reverse alignment lifted ranges to correspond to position 91-100 of the query sequence. Nope. Local coordinate…
Answer: Problem related to `biomaRt::getBM()` during `R CMD check` execution by James W. MacDonald 60k
Does the section in the biomaRt vignette that talks about caching (and using a temp dir) help?
Comment: OPLS-DA: confidence interval for accuracy metric by Eddie • 0
Worked well under pROC. Thank you
Votes
A: EGSEA error during report generation: "only 0's may be mixed with negative subsc
Answer: mapToAlignments_issue
Analysis of peaks generated from Homer using Diffbind
How to select summit size for histone ChiP-Seq in Diffbind
Comment: GSEA with Wikipathways not entirely reproducible
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