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Designmatrix
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0
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2
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Advice needed: Using limma for differential pathway analysis with continuous disease progression scores
limma
DifferentialExpression
Designmatrix
22 days ago • updated 21 days ago
Tadeoye
▴ 20
0
votes
1
reply
347
views
Deseq2 design matrix
DESeq2
Designmatrix
limma
updated 6 months ago by
James W. MacDonald
67k • written 6 months ago by
Neha
• 0
0
votes
3
replies
616
views
Finding DEGs by using edgeR
subsettingdata
edgeR
designmatrix
updated 8 months ago by
Gordon Smyth
52k • written 8 months ago by
prity6459
• 0
0
votes
1
reply
385
views
Limma design matrix only showing 3/4 treatments?
limma
designmatrix
updated 9 months ago by
Gordon Smyth
52k • written 9 months ago by
avery
• 0
3
votes
5
replies
1.3k
views
Design for DE analysis in tidybulk
DESeq2
designmatrix
edgeR
limma
tidybulk
updated 23 months ago by
Michael Love
43k • written 23 months ago by
aditya.m
▴ 10
4
votes
6
replies
1.5k
views
Question on creating right design matrix in edgeR
R
designmatrix
edgeR
limma
model.matrix
2.1 years ago
Abdul
▴ 20
2
votes
4
replies
1.7k
views
DESeq2/edgeR/limma help with most appropriate design matrix
DESeq2
limma
modelmatrix
edgeR
designmatrix
updated 3.2 years ago by
Gordon Smyth
52k • written 3.2 years ago by
rebecca.lea.johnston
• 0
0
votes
3
replies
1.4k
views
DESeq2 Design Matrix Two Conditions and Two Treatments
designmatrix
deseq2
DESeq2
updated 3.2 years ago by
swbarnes2
★ 1.4k • written 3.2 years ago by
OST
• 0
1
vote
2
replies
1.3k
views
multifactorial design matrix
designmatrix
RNA-seq
limma
updated 3.7 years ago by
Gordon Smyth
52k • written 3.8 years ago by
athief
▴ 20
1
vote
0
replies
834
views
Design Matrix for multiple variables in Edge R
designmatrix
DifferentialExpression
edgeR
RNAseq
3.9 years ago
nageshprabhu.k
▴ 10
2
votes
4
replies
1.2k
views
edgeR design matrix for multiple factors
MutlipleFactors
DesignMatrix
edgeR
3.9 years ago
Debayan
▴ 20
0
votes
2
replies
1.2k
views
Help creating a paired sample design matrix in edgeR
edgeR
pairedsamples
designmatrix
3.9 years ago
sfidemw
• 0
0
votes
2
replies
925
views
DESEQ2: Error in checkFullRank(modelMatrix)
deseq2
miRNASeq
designmatrix
Batch
updated 4.8 years ago by
Michael Love
43k • written 4.8 years ago by
anshulmbi
• 0
0
votes
2
replies
1.0k
views
How to create design matrix for differential analysis within the same cell-line samples?
edger
r
differentialanalysis
rnaseq
designmatrix
updated 5.7 years ago by
Aaron Lun
★ 28k • written 5.7 years ago by
Beginner
▴ 60
2
votes
6
replies
1.4k
views
Limma DesignMatrix, dropping terms
Limma
designMatrix
updated 6.5 years ago by
Aaron Lun
★ 28k • written 6.5 years ago by
Keifa
▴ 10
2
votes
4
replies
1.5k
views
design matrix for complicated experimental design in limma
limma
microarray
designmatrix
updated 8.4 years ago by
Aaron Lun
★ 28k • written 8.4 years ago by
nashchem
• 0
16 results • Page
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Comment: Build error on kunpeng2 Linux aarch64
by
wise
• 0
Try reinstalling the curl package. @[geometry dash lite][1] [1]: https://geometrydash-lite.com
Comment: Warning message when running limma with covariates
by
Chris
▴ 20
Hi @gordonsmyth. Happy New Year! Wishing you all the best in 2025. Thank you so much for your kind support!
Comment: Identifying potentially associated gene set to drug response using GSVA
by
coolmathforkids2
• 0
It is always helpful to see clear explanations and solutions for bioconductor related challenges. Posts like this make the community a valu…
Comment: minfi latest update for EPIC V2 chip
by
macdonaldfrench7286566
• 0
Yes, the most updated analysis for the EPIC V2 chip using the minfi package still involves using the annotations provided by jokergoo. *Th…
Answer: Incorporating Salmon offset matrix into Wilcoxon DEG analysis
by
Gordon Smyth
52k
To compute CPM values from edgeR: ``` y <- DGEList(counts = counts, samples = samples, genes = genes, group = samples$Disease_status) y <- …
Votes
Answer: Warning message when running limma with covariates
A: GWAS analysis with Illumina HumanOmni5-4 BeadChip - recommended software and wor
A: GWAS analysis with Illumina HumanOmni5-4 BeadChip - recommended software and wor
A: RNA-seq Normalisation - normalise all samples in experiment or only the ones use
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings?
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