Showing : interactions • reset
1
vote
1
reply
653
views
Is this DESeq2 interactions design correct?
DESeq2 interactions
updated 17 months ago by 42k • written 17 months ago by • 0
0
votes
2
replies
1.0k
views
DESeq2 interaction terms in 2x2x2 factorial design
Interactions design Multifactorial DESeq2
updated 2.6 years ago by ★ 1.4k • written 2.6 years ago by • 0
0
votes
1
reply
641
views
Account for parent cell line when comparing isogenic mutants
interactions design DESeq2
updated 2.6 years ago by 42k • written 2.6 years ago by • 0
0
votes
2
replies
809
views
results() function and finding the difference of differences
interactions DESeq2
2.6 years ago Nayrouz • 0
0
votes
3
replies
951
views
Analysis of interactions in RNAseq data: LRT vs 2 way ANOVA
DESeq2 LRT two-way-ANOVA interactions
updated 2.8 years ago by 42k • written 2.8 years ago by • 0
1
vote
2
replies
1.4k
views
How to do limma on 3 factors with multiple levels (e.g 3-way anova) on microarray log values
interactions 3factors limma Microarray
3.3 years ago Dan ▴ 20
2
votes
3
replies
1.0k
views
DeSEQ2 factor effect without interaction effect
DESeq2 Interactions
3.4 years ago cossardg ▴ 10
2
votes
3
replies
7.8k
views
DESeq2: Multiple Comparisons with Different Conditions and Replicates
Interactions DESeq2 Design
updated 3.4 years ago by ★ 3.9k • written 3.5 years ago by ▴ 30
6
votes
8
replies
2.5k
views
Interaction with DESeq2 via DiffBind
diffbind deseq2 interactions
updated 3.5 years ago by • 0 • written 6.6 years ago by ▴ 60
3
votes
3
replies
1.1k
views
Problem to understand Interactions at any time
RNA-seq edgeR interactions
updated 3.7 years ago by 51k • written 3.7 years ago by ▴ 10
1
vote
5
replies
886
views
Testing Interactions without an interaction term in the design formula
deseq2 interactions
updated 5.2 years ago by 42k • written 5.2 years ago by ▴ 30
0
votes
4
replies
1.9k
views
DESeq2 lfcShrink with interactions
deseq2 lfcShrink interactions
updated 5.4 years ago by 42k • written 5.4 years ago by • 0
0
votes
5
replies
1.3k
views
Splitting a dataset and control sample batch
deseq2 interactions batch effect correction grouping variable
updated 5.7 years ago by 42k • written 5.7 years ago by ▴ 90
0
votes
5
replies
1.4k
views
RNA-seq time course experiment - DESEq2 Contrasts
deseq2 rna-seq interactions contrast
updated 5.7 years ago by 42k • written 5.7 years ago by ▴ 10
0
votes
3
replies
1.2k
views
DESeq2 multifactor design, interpreting interaction names
deseq2 interactions multifactorial design
updated 5.8 years ago by 42k • written 5.8 years ago by • 0
0
votes
2
replies
949
views
Circumventing statistical non-significance on a triple interaction using edgeR
rnaseq edgeR makecontrasts interactions
updated 6.0 years ago by ★ 28k • written 6.0 years ago by ▴ 90
0
votes
1
reply
967
views
Interactions and contrasts for DE analysis in ballgown
ballgown R RNAseq DE interactions
updated 6.0 years ago by 66k • written 6.0 years ago by • 0
1
vote
5
replies
1.3k
views
Trying to simplify Interaction analysis with edger, and propably failing to do so?
rnaseq edger interactions multiple factor design differential gene expression
6.2 years ago David R ▴ 90
0
votes
1
reply
1.3k
views
Using Effect Coding or Orthogonal Coding instead of dummy coding in DESeq2?
deseq2 multiple factor design interactions orthogonal coding effect coding
updated 6.5 years ago by ★ 3.0k • written 6.5 years ago by ▴ 20
0
votes
2
replies
1.5k
views
stimulation effects between wild-type and knockout cells using deseq
multiple factor design interactions design matrix deseq2
updated 6.6 years ago by 42k • written 8.6 years ago by ★ 1.5k
11
votes
3
replies
3.1k
views
Testing three-way interactions in DESeq2
deseq2 rna-seq rnaseq interactions
updated 6.7 years ago by 42k • written 6.7 years ago by ▴ 60
5
votes
4
replies
1.5k
views
Differential expression analysis desgin
differential expression deseq2 edger interactions limma
updated 6.7 years ago by 51k • written 6.7 years ago by ▴ 10
0
votes
2
replies
1.7k
views
DESEq2 contrast statement syntax and design statement question
deseq2 interactions contrast
updated 6.8 years ago by 42k • written 6.8 years ago by ▴ 10
3
votes
7
replies
2.8k
views
DESeq2 lfcShrink with interactions
deseq2 interactions logfoldchange
updated 6.9 years ago by 42k • written 6.9 years ago by ▴ 70
4
votes
1
reply
2.5k
views
Limma: Contrasts with interaction term
limma interactions continuous term multiple factor design
updated 7.3 years ago by ★ 28k • written 7.3 years ago by ▴ 10
8
votes
3
replies
2.8k
views
[Limma] Testing continuous variable with interaction
limma voom continuous interactions confounding
7.7 years ago lanhuong ▴ 20
3
votes
5
replies
4.4k
views
DESeq2 3-fatcor design and different interaction terms
deseq2 bioconductor rnaseq multifactorial design interactions
updated 7.8 years ago by 42k • written 7.9 years ago by ▴ 10
2
votes
6
replies
1.9k
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 8.1 years ago by 42k • written 8.1 years ago by ▴ 10
2
votes
4
replies
5.5k
views
Interaction terms in DESeq2 contrasts
deseq2 interactions design and contrast matrix contrast
8.2 years ago dwzhang.wisc ▴ 20
3
votes
7
replies
4.4k
views
edgeR glmLRT and interaction effect: an example
rna-seq edger glmlrt interactions
updated 8.2 years ago by 51k • written 8.2 years ago by ▴ 90
2
votes
5
replies
1.8k
views
How to make sense of the fold change values in the interaction results object.
deseq2 logfoldchange interactions
updated 8.2 years ago by 42k • written 8.2 years ago by ▴ 30
2
votes
5
replies
5.6k
views
DESeq2 multifactor experiment design
deseq2 LRT multifactor contrast interactions
8.4 years ago rclaire ▴ 20
13
votes
6
replies
7.1k
views
DESeq2 multiple interaction terms 3-factor design
deseq2 deseq interactions multiple factor design
updated 8.4 years ago by 42k • written 8.4 years ago by ▴ 290
1
vote
5
replies
3.4k
views
Contrast All Interaction Effects in DESeq2 in current version (1.10.1)
DESeq2 differential gene expression interactions
8.6 years ago marcus.stoiber • 0
0
votes
2
replies
1.2k
views
R package for molecule interactions?
r package function interactions
8.6 years ago amyfm ▴ 10
6
votes
3
replies
5.5k
views
Calculating contrasts for continuous variable anad interaction effect in Limma
limma design matrix design and contrast matrix continuous interactions
updated 8.7 years ago by ★ 28k • written 8.7 years ago by ▴ 20
0
votes
1
reply
1.7k
views
DESeq2 design issues - specifically understanding contrasts & interactions from page 23-25 of the DESeq2 manual
deseq2 design and contrast matrix interactions contrast
updated 8.7 years ago by 42k • written 8.7 years ago by ▴ 20
2
votes
8
replies
3.1k
views
confusing on the interaction and betaprior in DESeq2.
deseq2 interactions contrast
9.0 years ago shao ▴ 100
1
vote
1
reply
1.5k
views
Interaction of fixed effects in DESeq2
deseq2 interactions
updated 9.0 years ago by 42k • written 9.0 years ago by • 0
3
votes
4
replies
3.0k
views
RNAseq analysis using edgeR - specifying and testing full factorial 2x2x4 model, main effects and interactions.
edger multiple factor design interactions
updated 9.2 years ago by ★ 28k • written 9.2 years ago by • 0
1
vote
0
replies
2.1k
views
Job: Bioinformatics / Biostatistics in genetic interaction analysis
high-throughput screening interactions genetics jobs image analysis Job
9.2 years ago Bernd Fischer ▴ 550
5
votes
11
replies
11k
views
DESeq2: with multiple factors and interaction terms won't show all effects
deseq2 multiple factor design contrast interactions
updated 9.3 years ago by 42k • written 9.3 years ago by ▴ 90
0
votes
3
replies
2.0k
views
DESeq2: interaction controlling for genetic effects
deseq interactions
updated 9.5 years ago by 42k • written 9.5 years ago by ▴ 10
1
vote
7
replies
2.8k
views
Shiny app for RefNet, PSICQUIC: annotated protein/protein interactions
shiny network interactions
9.6 years ago pshannon ▴ 100
44 results • Page 1 of 1
Recent ...
Replies
Comment: Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0` by isaac.vock • 0
Thank you for looking into this and for your explanation! As a follow-up, would it be possible in future releases of featureCounts to pro…
Comment: error loading collectTRI regulon by silvaesilva.da • 0
Fantastic. Thank you very much. Everything has been sorted out
Answer: DESeq2 returns results for group with just one replicate by James W. MacDonald 66k
There is no problem having only one replicate per group, so long as you have replicates for other groups. The degrees of freedom are based …
Answer: Limma model.matrix design with batch effect and different life stages proportion by Masongeorge • 0
Thanks for this post. i found it helpful for my own issue that was occurring on the backend of this page.
Comment: error loading collectTRI regulon by deeenes ▴ 50
I fixed the original, Ensembl HTTP 403 error only now, [see here][1]. If you've seen it gone earlier today, only shows that this error appe…
Votes
Answer: Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0`
Answer: DESeq2 returns results for group with just one replicate
Answer: DESeq2 returns results for group with just one replicate
Comment: error loading collectTRI regulon
A: Scaling option in fastMNN
Awards • All
Scholar to James W. MacDonald 66k
Popular Question to Le • 0
Popular Question to Jon Bråte ▴ 250
Popular Question to alan.ocallaghan ▴ 160
Popular Question to yesitsjess • 0
Locations • All
Canada, 7 minutes ago
United States, 1 hour ago
The city by the bay, 1 hour ago
WEHI, Melbourne, Australia, 1 hour ago
Japan, 2 hours ago
Traffic: 466 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6