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glmLRT()
•
reset
7
votes
5
replies
3.6k
views
edgeR effects of design on testing main effects and interactions
edger
glmfit
glmlrt()
updated 8.5 years ago by
Aaron Lun
★ 28k • written 8.5 years ago by
cadeans
• 0
6
votes
7
replies
7.2k
views
EdgeR: glmLRT(), Multifactorial designs and correction for multiple testing
edgeR
glmLRT()
multiple factor design
multiple testing correction
updated 9.4 years ago by
Aaron Lun
★ 28k • written 9.4 years ago by
Ekarl2
▴ 80
5
votes
7
replies
3.8k
views
How to specify 'contrast' in glmLRT command when treatments in design matrix are named with numbers, not letters
edger
rnaseq
glmlrt()
updated 9.2 years ago by
James W. MacDonald
66k • written 9.2 years ago by
MBWatson
• 0
4
votes
15
replies
1.8k
views
Adjusting for procedural effect and deciding on statistical test
EdgeR
glmlrt()
ql f-test
7.6 years ago • updated 6.9 years ago
elineverbon
▴ 20
4
votes
8
replies
1.9k
views
EdgeR: batches and samples over-specify system, how to contrast un-modeled variables?
edger
glmlrt()
differential expression
design and contrast matrix
updated 8.9 years ago by
Gordon Smyth
50k • written 8.9 years ago by
carlgdeboer
• 0
4
votes
7
replies
2.9k
views
Can we use glmQLFit instead of glmFit and then glmLRT in edgeR
edger
differential gene expression
glmlrt()
7.4 years ago
simarsidhu25
• 0
2
votes
2
replies
1.4k
views
EdgeR User Guide: use of glmLRT vs glmQLF in oral carcinoma Case Study
edger
design matrix
glmlrt()
glmQFTest()
paired design
5.6 years ago
oakhamwolf
• 0
1
vote
6
replies
1.2k
views
design of edgeR GLM test
edger
differential gene expression
glmlrt()
7.4 years ago
simarsidhu25
• 0
0
votes
7
replies
3.6k
views
Computing contrasts with a covariate using edgeR glmLRT()
edger
contrast
covariate
glmlrt()
7.1 years ago
Jeff Skinner
• 0
9 results • Page
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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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★ 4.2k
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▴ 720
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