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Designmatrix
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0
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2
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732
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Advice needed: Using limma for differential pathway analysis with continuous disease progression scores
limma
DifferentialExpression
Designmatrix
12 months ago
Tadeoye
▴ 20
0
votes
1
reply
582
views
Deseq2 design matrix
DESeq2
Designmatrix
limma
updated 18 months ago by
James W. MacDonald
68k • written 18 months ago by
Neha
• 0
0
votes
3
replies
1.0k
views
Finding DEGs by using edgeR
subsettingdata
edgeR
designmatrix
updated 20 months ago by
Gordon Smyth
53k • written 20 months ago by
prity6459
• 0
0
votes
1
reply
608
views
Limma design matrix only showing 3/4 treatments?
limma
designmatrix
updated 20 months ago by
Gordon Smyth
53k • written 20 months ago by
avery
• 0
3
votes
5
replies
1.7k
views
Design for DE analysis in tidybulk
DESeq2
designmatrix
edgeR
limma
tidybulk
updated 2.9 years ago by
Michael Love
43k • written 2.9 years ago by
aditya.m
▴ 10
4
votes
6
replies
1.9k
views
Question on creating right design matrix in edgeR
R
designmatrix
edgeR
limma
model.matrix
3.0 years ago
Abdul
▴ 20
2
votes
4
replies
2.1k
views
DESeq2/edgeR/limma help with most appropriate design matrix
DESeq2
limma
modelmatrix
edgeR
designmatrix
updated 4.2 years ago by
Gordon Smyth
53k • written 4.2 years ago by
rebecca.lea.johnston
• 0
0
votes
3
replies
1.7k
views
DESeq2 Design Matrix Two Conditions and Two Treatments
designmatrix
deseq2
DESeq2
updated 4.2 years ago by
swbarnes2
★ 1.4k • written 4.2 years ago by
OST
• 0
1
vote
2
replies
1.7k
views
multifactorial design matrix
designmatrix
RNA-seq
limma
updated 4.7 years ago by
Gordon Smyth
53k • written 4.7 years ago by
athief
▴ 20
1
vote
0
replies
1.0k
views
Design Matrix for multiple variables in Edge R
designmatrix
DifferentialExpression
edgeR
RNAseq
4.8 years ago
nageshprabhu.k
▴ 10
2
votes
4
replies
1.5k
views
edgeR design matrix for multiple factors
MutlipleFactors
DesignMatrix
edgeR
4.9 years ago
Debayan
▴ 20
0
votes
2
replies
1.6k
views
Help creating a paired sample design matrix in edgeR
edgeR
pairedsamples
designmatrix
4.9 years ago
sfidemw
• 0
0
votes
2
replies
1.2k
views
DESEQ2: Error in checkFullRank(modelMatrix)
deseq2
miRNASeq
designmatrix
Batch
updated 5.7 years ago by
Michael Love
43k • written 5.7 years ago by
anshulmbi
• 0
0
votes
2
replies
1.3k
views
How to create design matrix for differential analysis within the same cell-line samples?
edger
r
differentialanalysis
rnaseq
designmatrix
updated 6.6 years ago by
Aaron Lun
★ 29k • written 6.6 years ago by
Beginner
▴ 60
2
votes
6
replies
1.7k
views
Limma DesignMatrix, dropping terms
Limma
designMatrix
updated 7.4 years ago by
Aaron Lun
★ 29k • written 7.4 years ago by
Keifa
▴ 10
2
votes
4
replies
1.9k
views
design matrix for complicated experimental design in limma
limma
microarray
designmatrix
updated 9.4 years ago by
Aaron Lun
★ 29k • written 9.4 years ago by
nashchem
• 0
16 results • Page
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Replies
Comment: blockwiseModule crashes in the end and doesn't generate modules
by
gexose2839
• 0
Sounds good. @[time][1] [1]: https://timeduration.github.io
Comment: PFAM formats changed - is it still possible to use this with ISA?
by
TikTsokaasocissalpc
• 0
For mobile gaming enthusiasts, 3 Patti Lucky offers a seamless experience, unlike the frustration Harris faced with incompatible PFAM resul…
Answer: segfault in edgeR glmQLFit
by
Gordon Smyth
53k
Dear Mark, Thank you for providing a reproducible example. I confirm that I can reproduce the segfault myself on my own computer. The prob…
Answer: DESeq2 - how many surrogate variables from svaseq, use of lfcshrink
by
aqeel
• 0
Discover the pinnacle of Brazilian Jiu Jitsu gear at [Dragon][1] GI. [1]: https://dragongi.com/
Comment: How does contrasts.fit do in limma to extract comparisons with a model having in
by
Gordon Smyth
53k
I refered you to the DiffVar package 11 months ago. Did you consider it? Your clarification makes it clear that your issue is not with lim…
Votes
C: DESeq2 Following RSEM
Upcoming Ensembl API and data access changes - new blog post available
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Large logFC but somewhat high FDR
Comment: upstream git branches of bioc-release
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Gordon Smyth
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