Showing : experimental design • reset
6
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6
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5.5k
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Limma multi-group analysis - General F-test
limma experimental design
updated 4.9 years ago by 52k • written 4.9 years ago by ▴ 10
0
votes
1
reply
883
views
DESeq2 compairson of 3 samples from 1 type
deseq2 multiple factor design contrasts experimental design
updated 5.9 years ago by 43k • written 5.9 years ago by • 0
1
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2
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1.1k
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Call DE genes on Unbalanced design with controls
edger experimental design
5.9 years ago timedreamer ▴ 10
0
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4
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1.3k
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DESeq2 analysis design - different individuals for all samples
deseq2 rnaseq model.matrix experimental design
6.4 years ago Maithê Barros ▴ 10
1
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9
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2.0k
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shRNA-Seq analysis using edgeR
shrnaseq edger experimental design model.matrix
updated 6.4 years ago by ★ 28k • written 6.4 years ago by ★ 1.5k
0
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0
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1.1k
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Job: Postdoctoral Research Fellowship- reinforcement learning in biology- London
job bioinformatician job machine learning gene expression experimental design Job
6.6 years ago dezer ▴ 10
2
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6
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1.4k
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DESeq2 Gene Expression Set up: Behavior vs Age
deseq2 experimental design
updated 6.6 years ago by 43k • written 6.6 years ago by • 0
4
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2
replies
1.4k
views
How does the function model.matrix (to define experimental design) really works ?
experimental design model.matrix edger
updated 7.1 years ago by ★ 7.9k • written 7.1 years ago by ▴ 20
1
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2
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1.7k
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DESeq2 design & model matrix not full rank - am I nesting correctly?
deseq2 model matrix experimental design multiple factor design
updated 7.3 years ago by 43k • written 7.3 years ago by • 0
0
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1
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3.6k
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DESeq2 design model/contrasts question 3 level condition
deseq2 model design differential gene expression experimental design
updated 7.3 years ago by 43k • written 7.3 years ago by • 0
6
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1
reply
11k
views
DESeq2 interaction term in two-factor design, which contrasts?
deseq2 experimental design interaction model
updated 7.7 years ago by 43k • written 7.7 years ago by ▴ 30
1
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2
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4.9k
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Multiple comparisons for DE analysis with DESeq2
deseq2 mirna-seq experimental design differential expression
updated 8.0 years ago by ▴ 690 • written 8.0 years ago by ▴ 10
1
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2
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1.8k
views
Trying to design a model(s) for a two factor RNA-seq experimental analysis in EdgeR with interaction
EdgeR RNAseq experimental design glm
updated 8.1 years ago by ★ 28k • written 8.1 years ago by • 0
0
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1
reply
1.1k
views
Genotypic difference design using deseq2
Deseq2 genotype experimental design
updated 8.2 years ago by 43k • written 8.2 years ago by ▴ 90
5
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2
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2.2k
views
DESeq2 design matrix for timecourse
deseq2 experimental design timecourse rnaseq model
updated 8.5 years ago by 43k • written 8.5 years ago by ▴ 20
2
votes
2
replies
1.5k
views
EdgeR experimental design matrix
edger differential gene expression experimental design
updated 8.9 years ago by ★ 28k • written 8.9 years ago by • 0
6
votes
1
reply
2.7k
views
DESeq2, difficulties with multi-factor design
DESeq2 multiple factor design experimental design contrast
updated 9.4 years ago by 43k • written 9.4 years ago by ▴ 60
5
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7
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2.4k
views
what conditions affect my gene (with limma?)
limma geo experimental design
updated 9.7 years ago by 52k • written 9.7 years ago by • 0
4
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3
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3.2k
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DESeq2 - design for TCGA level 3 data
deseq2 tcga experimental design multiple factor design
updated 9.9 years ago by 43k • written 9.9 years ago by ▴ 40
1
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2
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1.9k
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qRT-PCR Sample Maximization software analysis and proper experimental design advice
qPCR Sample Maximization Analysis Experimental Design qRT-PCR
updated 10.0 years ago by 52k • written 10.0 years ago by ▴ 450
0
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4
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2.2k
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Question: DESeq2 nested design, multifactor test
deseq2 experimental design
10.0 years ago Shucong Li ▴ 60
21 results • Page 1 of 1
Recent ...
Replies
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…
Comment: RNA Seq using Lrt by Rob • 0
So if I have understood what you have said : If i want to see if Day (time) has an effect / is being tested - then the reduced model should…
Comment: How to convert transcript counts to gene counts in R? by ben • 0
Simply summing transcripts by gene is sufficient for use with DESeq2. [sprunki clicker][1] [1]: https://sprunkiclicker.com/
Answer: EuroBioC2024 abstract submission is open! by Ali • 0
[Promo products][1] are a smart way to boost visibility, especially with exciting updates like *News: EuroBioC2024 abstract submission is o…
Answer: ROAST for small sets by Gordon Smyth 52k
The p-values from `mroast` will be the same (up to sampling variability associated with random rotations) regardless of whether you test al…
Votes
A: Unbalanced experiment with multiple samples from each patient.
A: Understanding contrasts limma
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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