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model matrix
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0
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2
replies
1.5k
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Model matrix for longitudinal pairwise rna-seq data: linear regression or linear mixed model?
limma
model matrix
linear regression
6.2 years ago
agm
• 0
1
vote
2
replies
1.9k
views
DESeq2 design & model matrix not full rank - am I nesting correctly?
deseq2
model matrix
experimental design
multiple factor design
updated 7.7 years ago by
Michael Love
43k • written 7.7 years ago by
amye107
• 0
0
votes
7
replies
1.9k
views
Model matrix not full rank
deseq2
linear combination
model matrix
updated 7.9 years ago by
Michael Love
43k • written 7.9 years ago by
sally_b86
• 0
2
votes
4
replies
1.6k
views
Removing batch effect on edgeR when interactons are looked at
rnaseq
edger
statistics
model matrix
updated 8.0 years ago by
Steve Lianoglou
★ 13k • written 8.0 years ago by
David R
▴ 90
3
votes
6
replies
30k
views
Designing a contrast in DESEQ
deseq2
design and contrast matrix
model matrix
8.6 years ago
mrigaya.mehra
▴ 10
0
votes
8
replies
2.3k
views
DESeq2 glibc error
deseq2
differential gene expression
model matrix
updated 8.6 years ago by
Michael Love
43k • written 8.6 years ago by
gregory.l.stone
▴ 10
4
votes
6
replies
3.1k
views
Find if a covariate has effect on gene expression level using edgeR and DESeq2
edger
deseq2
model matrix
differential expression
9.0 years ago
ta65
• 0
2
votes
7
replies
3.7k
views
ballgown custom models
ballgown
linear model
model matrix
custom model
9.5 years ago • updated 9.4 years ago
sbcn
▴ 80
7
votes
6
replies
4.6k
views
Design and contrast question limma (additive or nested or duplicateCorrelation())??
limma
model matrix
limma design matrix
complex-design
updated 10.3 years ago by
Aaron Lun
★ 29k • written 10.3 years ago by
Guido Hooiveld
★ 4.1k
9
votes
2
replies
5.9k
views
Limma Model Matrix Understanding
limma
limma design matrix
model matrix
updated 10.4 years ago by
Aaron Lun
★ 29k • written 10.4 years ago by
andrew.j.skelton73
▴ 370
2
votes
5
replies
4.6k
views
design model matrix for nested factors (edgeR)
edger
design matrix
model matrix
updated 10.4 years ago by
Aaron Lun
★ 29k • written 10.4 years ago by
silvia.paolucci81
• 0
11 results • Page
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Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi
by
ReinholdGaylord99
• 0
Thank you so much! https://www.nature.com/articles/s41467-021-25960-2
Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design
by
Gordon Smyth
53k
I'm not sure that I understand. You have a dataset that, even after pseudo-bulking, still has 6000 samples? That is surprising. Retaining …
Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design
by
abaed
• 0
Hello again @gordonsmyth, I've now applied the analysis using a more detailed annotation of cell types/clusters, which includes about 100 …
Answer: Sharing a collection of datasets in ExperimentHub
by
shepherl
4.2k
107 packages would be a lot! It is certainly possible (and recommended) to implement one package that utilizes ExperimentHub for controlli…
Comment: GO.db and others package Download failure
by
James W. MacDonald
68k
Also, you never need to use anything but `BiocManager::install` to install any package, which has the beneficial side effect of ensuring th…
Votes
Comment: readDNAStringSet with non DNA characters
Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design
Answer: Guidance on limma for pseudobulk scRNA-seq with multi-factor design
Answer: Guidance on limma for pseudobulk scRNA-seq with multi-factor design
Comment: Guidance on limma for pseudobulk scRNA-seq with multi-factor design
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