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glmfit
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EdgeR - How to set up the design matrix for a multifactorial experimental design with interactions?
edger
edger main and interaction effects
glmfit
updated 5.0 years ago by
Aaron Lun
★ 28k • written 5.0 years ago by
D
• 0
3
votes
1
reply
4.3k
views
edgeR: exactTest, glmFIt or glmQLFit approach?
edger
rnaseq
glm
glmfit
updated 6.9 years ago by
Aaron Lun
★ 28k • written 6.9 years ago by
alessia.donato
• 0
0
votes
3
replies
1.6k
views
Standard errors of fitted values from glmFit in edgeR
edger
standard error
glmfit
6.9 years ago
david.hughes
• 0
7
votes
5
replies
3.1k
views
edgeR effects of design on testing main effects and interactions
edger
glmfit
glmlrt()
updated 7.6 years ago by
Aaron Lun
★ 28k • written 7.6 years ago by
cadeans
• 0
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Comment: Question on constructing design matrix and defining contrasts for analysis
by
mohammedtoufiq91
▴ 10
Sure, noted.
Comment: Question on constructing design matrix and defining contrasts for analysis
by
mohammedtoufiq91
▴ 10
@gordonsmyth Yes, I realized while re-running through the WGCNA workflow and forget to account for the paired experiment. For general gene …
Comment: Question on constructing design matrix and defining contrasts for analysis
by
Gordon Smyth
47k
PS. Just as aside, using `dput` to show a data.frame is unnecessary overkill. Just typing `targetsframe` at the prompt would to the job.
Comment: Question on constructing design matrix and defining contrasts for analysis
by
Gordon Smyth
47k
> Basically, I want to create a design matrix and binarize by 0 and 1 to be used in WGCNA analysis to compare module between/within groups …
Comment: SummarizedExperiment is now warning on attach about `read_block` namespace confl
by
ansleyharralson
• 0
Any estimate on when DelayedArray 0.26.3 will be released for macOS Binary (arm64)? Latest is still 0.26.02 best I can tell.
Votes
WGCNA coupled with differential expression analysis: question about baseline module detection
WGCNA with paired samples
Comment: Question on constructing design matrix and defining contrasts for analysis
Comment: Question on constructing design matrix and defining contrasts for analysis
Answer: Question on constructing design matrix and defining contrasts for analysis
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