Showing : experimental design • reset
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Question: DESeq2 nested design, multifactor test
deseq2 experimental design
9.1 years ago Shucong Li ▴ 60
5
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7
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2.1k
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what conditions affect my gene (with limma?)
limma geo experimental design
updated 8.7 years ago by 50k • written 8.8 years ago by • 0
6
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6
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4.1k
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Limma multi-group analysis - General F-test
limma experimental design
updated 4.0 years ago by 50k • written 4.0 years ago by ▴ 10
2
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2
replies
1.3k
views
EdgeR experimental design matrix
edger differential gene expression experimental design
updated 8.0 years ago by ★ 28k • written 8.0 years ago by • 0
5
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2
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1.8k
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DESeq2 design matrix for timecourse
deseq2 experimental design timecourse rnaseq model
updated 7.6 years ago by 42k • written 7.6 years ago by ▴ 20
0
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1
reply
939
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Genotypic difference design using deseq2
Deseq2 genotype experimental design
updated 7.3 years ago by 42k • written 7.3 years ago by ▴ 90
1
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2
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1.5k
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Trying to design a model(s) for a two factor RNA-seq experimental analysis in EdgeR with interaction
EdgeR RNAseq experimental design glm
updated 7.2 years ago by ★ 28k • written 7.2 years ago by • 0
1
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2
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4.5k
views
Multiple comparisons for DE analysis with DESeq2
deseq2 mirna-seq experimental design differential expression
updated 7.0 years ago by ▴ 680 • written 7.0 years ago by ▴ 10
1
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2
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1.7k
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qRT-PCR Sample Maximization software analysis and proper experimental design advice
qPCR Sample Maximization Analysis Experimental Design qRT-PCR
updated 9.1 years ago by 50k • written 9.1 years ago by ▴ 450
1
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2
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1.4k
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DESeq2 design & model matrix not full rank - am I nesting correctly?
deseq2 model matrix experimental design multiple factor design
updated 6.3 years ago by 42k • written 6.3 years ago by • 0
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1
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3.0k
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DESeq2 design model/contrasts question 3 level condition
deseq2 model design differential gene expression experimental design
updated 6.3 years ago by 42k • written 6.3 years ago by • 0
4
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2
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1.1k
views
How does the function model.matrix (to define experimental design) really works ?
experimental design model.matrix edger
updated 6.2 years ago by ★ 7.9k • written 6.2 years ago by ▴ 20
2
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6
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1.1k
views
DESeq2 Gene Expression Set up: Behavior vs Age
deseq2 experimental design
updated 5.7 years ago by 42k • written 5.7 years ago by • 0
1
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9
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1.5k
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shRNA-Seq analysis using edgeR
shrnaseq edger experimental design model.matrix
updated 5.5 years ago by ★ 28k • written 5.5 years ago by ★ 1.5k
0
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4
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970
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DESeq2 analysis design - different individuals for all samples
deseq2 rnaseq model.matrix experimental design
5.5 years ago Maithê Barros ▴ 10
1
vote
2
replies
808
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Call DE genes on Unbalanced design with controls
edger experimental design
5.0 years ago timedreamer ▴ 10
0
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1
reply
688
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DESeq2 compairson of 3 samples from 1 type
deseq2 multiple factor design contrasts experimental design
updated 5.0 years ago by 42k • written 5.0 years ago by • 0
6
votes
1
reply
11k
views
DESeq2 interaction term in two-factor design, which contrasts?
deseq2 experimental design interaction model
updated 6.8 years ago by 42k • written 6.8 years ago by ▴ 30
4
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3
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2.9k
views
DESeq2 - design for TCGA level 3 data
deseq2 tcga experimental design multiple factor design
updated 9.0 years ago by 42k • written 9.0 years ago by ▴ 40
6
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1
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2.5k
views
DESeq2, difficulties with multi-factor design
DESeq2 multiple factor design experimental design contrast
updated 8.5 years ago by 42k • written 8.5 years ago by ▴ 60
0
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0
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906
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Job: Postdoctoral Research Fellowship- reinforcement learning in biology- London
job bioinformatician job machine learning gene expression experimental design Job
5.6 years ago dezer ▴ 10
21 results • Page 1 of 1
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Comment: Volcano plot of scRNA-seq data not "centered" by Michael Love 42k
Agree with @atpoint Depending on the "groups" in single cell, the question of DE can be not well defined without inserting additional inf…
Answer: Volcano plot of scRNA-seq data not "centered" by ATpoint ★ 4.2k
Sounds like a normalization problem, but I am not sure how to help with that. Indeed you can use control genes, for example use the top 20%…
Comment: Using featureCounts with SAF annotation file gives "Error: only GTF files contai by ATpoint ★ 4.2k
I was talking about the command line version.
Comment: Using featureCounts with SAF annotation file gives "Error: only GTF files contai by atan • 0
I tried reading in the .csv version of the SAF with header = F and I'm still getting an error. I'm running: ``` counts <- featureCounts( …
Comment: Using the plotting functions of clusterProfiler / enrichplot with enrichment res by jovel_juan ▴ 30
enrichPlot requirements are rather low. All what it needs is to provide few columns named specifically. I student of mine wrote the first v…
Votes
Answer: Documenting resources in an `ExperimentHub` package?
Answer: Not able to install any Bioconductor 3.18 package [unable to access index]
Seurat/DESeq2 - single cell RNA-seq differential expression
Seurat to SingleCellExperiment Converting error in MAC
Error when converting Seurat to SingleCellExperiment
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