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contrast matrix
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0
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2
replies
3.0k
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Time-course analysis with limma for >3 time points
limma
contrast matrix
design matrix
multiple time points
timecourse
updated 3.0 years ago by
rf
• 0 • written 6.9 years ago by
relathman
▴ 20
3
votes
6
replies
2.2k
views
Help to understand my contrast.matrix and to interpret my topTable results
contrast matrix
toptable
makecontrasts
differential gene expression
6.6 years ago
stinehedensted
• 0
5
votes
5
replies
1.4k
views
Design and Contrast Matrix for Linear Model. To Combine or not to Combine?
limma
design and contrast matrix
design matrix
contrast matrix
updated 5.6 years ago by
James W. MacDonald
66k • written 5.6 years ago by
mikhael.manurung
▴ 270
1
vote
2
replies
1.3k
views
differentially expressed genes without contrasts
limma
toptable
makecontrasts
contrast matrix
updated 6.9 years ago by
Ryan C. Thompson
★ 7.9k • written 6.9 years ago by
hoe
• 0
0
votes
4
replies
1.3k
views
Agilent two-color microarray analysis with limma: 2x3 factorial design
limma
microarray
contrast matrix
2x3 factorial design
differential expression
updated 4.1 years ago by
Gordon Smyth
50k • written 4.2 years ago by
Natalia
• 0
4
votes
3
replies
1.3k
views
What is the correct contrast matrix if one treatment must be compared to both of the other two treatments, but separately?
edger
limma
model.matrix
contrast matrix
design matrix
updated 7.8 years ago by
Gavin Kelly
▴ 680 • written 7.8 years ago by
Peter
• 0
0
votes
8
replies
1.2k
views
Designating contrasts in diffSpliceDGE to test for nested effects
diffSpliceDGE
Contrast matrix
edger
updated 3.6 years ago by
Gordon Smyth
50k • written 3.6 years ago by
rachel.steward
• 0
4
votes
7
replies
1.1k
views
Design matrix and contrast for RNA knockdown experiment
design matrix
limma
contrast matrix
updated 7.6 years ago by
Aaron Lun
★ 28k • written 7.6 years ago by
maltethodberg
▴ 180
0
votes
1
reply
1.1k
views
Syntax of DESeq2 contrast argument for all pairwise comparisons
deseq2
contrast matrix
updated 7.3 years ago by
Michael Love
42k • written 7.3 years ago by
natalie.hull
• 0
9 results • Page
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Answer: Running ENmix with mouse methylation manifest: readidat error - Error in readman
by
minardsmitha
▴ 10
Well it turns out there is a typo in the manifest file name. This particular issue is resolved by correcting the typo. A new error now …
Answer: Documenting resources in an `ExperimentHub` package?
by
James W. MacDonald
66k
The easiest way to do that IMO is to use emacs/ESS (or I believe there is some newfangled thing called RStudio? Not personally familiar, bu…
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shepherl
3.9k
We are still waiting for the goseq to respond to our requests but will take action next week if it is not resolved. ChAMP is currently una…
Comment: How to arrange multiple plots into one page in NOISeq?
by
baptiste.bidon
• 0
After facing the same problem, I realise that you can direct your plot in the matrix with the *par()* option `par(..., mfg = c(1,2))`. If i…
Comment: ChAMP installation issue
by
Tahirah
• 0
Hello. Could you please share how you managed to install ChAMP in R 4.4.0? I also have R 4.4.0 and Bioconductor 3.19 version and ChAMP fail…
Votes
how to control age and gender effect in expression data using DESeq2
Answer: Error retrieving ensembl gene id using biomaRt...
Comment: LRT, more than two conditions and pairwise comparisons
Answer: Control group between 2 batches have different expression in RNAseq data
Answer: How to remove batch effect to combine RNAseq data from 2 different experiments?
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