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glmlrt()
•
reset
4
votes
15
replies
1.7k
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Adjusting for procedural effect and deciding on statistical test
EdgeR
glmlrt()
ql f-test
7.4 years ago • updated 6.7 years ago
elineverbon
▴ 20
1
vote
6
replies
1.1k
views
design of edgeR GLM test
edger
differential gene expression
glmlrt()
7.3 years ago
simarsidhu25
• 0
5
votes
7
replies
3.7k
views
How to specify 'contrast' in glmLRT command when treatments in design matrix are named with numbers, not letters
edger
rnaseq
glmlrt()
updated 9.0 years ago by
James W. MacDonald
65k • written 9.0 years ago by
MBWatson
• 0
2
votes
2
replies
1.3k
views
EdgeR User Guide: use of glmLRT vs glmQLF in oral carcinoma Case Study
edger
design matrix
glmlrt()
glmQFTest()
paired design
5.4 years ago
oakhamwolf
• 0
4
votes
7
replies
2.8k
views
Can we use glmQLFit instead of glmFit and then glmLRT in edgeR
edger
differential gene expression
glmlrt()
7.3 years ago
simarsidhu25
• 0
0
votes
7
replies
3.5k
views
Computing contrasts with a covariate using edgeR glmLRT()
edger
contrast
covariate
glmlrt()
7.0 years ago
Jeff Skinner
• 0
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 8.8 years ago by
Gordon Smyth
50k • written 8.8 years ago by
carlgdeboer
• 0
7
votes
5
replies
3.5k
views
edgeR effects of design on testing main effects and interactions
edger
glmfit
glmlrt()
updated 8.4 years ago by
Aaron Lun
★ 28k • written 8.4 years ago by
cadeans
• 0
6
votes
7
replies
7.1k
views
EdgeR: glmLRT(), Multifactorial designs and correction for multiple testing
edgeR
glmLRT()
multiple factor design
multiple testing correction
updated 9.2 years ago by
Aaron Lun
★ 28k • written 9.2 years ago by
Ekarl2
▴ 80
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Answer: Doing comparison of RNA-seq data using EdgeR
by
Gordon Smyth
50k
It's pretty easy to do a two-group comparison using edgeR, but you seem to be stuck at the initial stage of reading data into R. If you exp…
Answer: Differing results from plotMDS and PCAtools
by
Gordon Smyth
50k
The reason why the two plots are different is that the first plot is a PCA plot while the second is a biplot. Quite different plots. The P…
Answer: New genes that did not exist in dds object suddenly showed up after degPatterns
by
Michael Love
41k
May be documented by the software you are using? https://github.com/lpantano/DEGreport
Answer: Doing comparison of RNA-seq data using Deseq2
by
Michael Love
41k
Take a look at our workflow, this starts from a beginner's level. You could export from Excel using CSV or TSV, then read into R. htt…
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65k
This support site is meant to help people with questions about Bioconductor packages (WGCNA is not a Bioconductor package). You might try o…
Votes
transcript name mapping between human and mouse
transcript name mapping between human and mouse
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
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