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model matrix
•
reset
4
votes
6
replies
2.5k
views
Find if a covariate has effect on gene expression level using edgeR and DESeq2
edger
deseq2
model matrix
differential expression
7.7 years ago
ta65
• 0
2
votes
7
replies
3.1k
views
ballgown custom models
ballgown
linear model
model matrix
custom model
8.2 years ago • updated 8.1 years ago
sbcn
▴ 80
9
votes
2
replies
5.4k
views
Limma Model Matrix Understanding
limma
limma design matrix
model matrix
updated 9.0 years ago by
Aaron Lun
★ 28k • written 9.0 years ago by
andrew.j.skelton73
▴ 370
0
votes
8
replies
1.8k
views
DESeq2 glibc error
deseq2
differential gene expression
model matrix
updated 7.3 years ago by
Michael Love
42k • written 7.3 years ago by
gregory.l.stone
▴ 10
3
votes
6
replies
28k
views
Designing a contrast in DESEQ
deseq2
design and contrast matrix
model matrix
7.2 years ago
mrigaya.mehra
▴ 10
2
votes
4
replies
1.2k
views
Removing batch effect on edgeR when interactons are looked at
rnaseq
edger
statistics
model matrix
updated 6.6 years ago by
Steve Lianoglou
★ 13k • written 6.6 years ago by
David R
▴ 90
0
votes
7
replies
1.4k
views
Model matrix not full rank
deseq2
linear combination
model matrix
updated 6.6 years ago by
Michael Love
42k • written 6.6 years ago by
sally_b86
• 0
1
vote
2
replies
1.4k
views
DESeq2 design & model matrix not full rank - am I nesting correctly?
deseq2
model matrix
experimental design
multiple factor design
updated 6.3 years ago by
Michael Love
42k • written 6.3 years ago by
amye107
• 0
7
votes
6
replies
4.0k
views
Design and contrast question limma (additive or nested or duplicateCorrelation())??
limma
model matrix
limma design matrix
complex-design
updated 8.9 years ago by
Aaron Lun
★ 28k • written 8.9 years ago by
Guido Hooiveld
★ 4.0k
2
votes
5
replies
3.8k
views
design model matrix for nested factors (edgeR)
edger
design matrix
model matrix
updated 9.1 years ago by
Aaron Lun
★ 28k • written 9.1 years ago by
silvia.paolucci81
• 0
0
votes
2
replies
1.1k
views
Model matrix for longitudinal pairwise rna-seq data: linear regression or linear mixed model?
limma
model matrix
linear regression
4.9 years ago
agm
• 0
11 results • Page
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Answer: ERROR; return code from pthread_create() is 22
by
James W. MacDonald
65k
Seems OK to me. ``` > dat <- ReadAffy() > dat AffyBatch object size of arrays=744x744 features (20 kb) cdf=HG-U219 (49386 affyids) …
Answer: LRT, more than two conditions and pairwise comparisons
by
James W. MacDonald
65k
Unless you think the different lines or tissues will have very different within-group variances, you should just analyze together and make …
Answer: How to remove batch effect to combine RNAseq data from 2 different experiments?
by
James W. MacDonald
65k
It appears that batch is orthogonal to the treatment, so you can just fit a batch effect in your model.
Answer: Control group between 2 batches have different expression in RNAseq data
by
James W. MacDonald
65k
Since batch is orthogonal to the treatment, you just add a batch factor to your model.
Answer: Subsetting RNAseq data | voomaByGroup()
by
Anna
• 0
Hi Gordon. Thank you so much. Your reply is extremely helpful, and I feel more confident moving forward with the analysis. Also, very inte…
Votes
Answer: Subsetting RNAseq data | voomaByGroup()
biomaRt not working - lazy table error
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
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