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Showing :
designMatrix
•
reset
4
votes
6
replies
1.2k
views
Question on creating right design matrix in edgeR
R
designmatrix
edgeR
limma
model.matrix
17 months ago
Abdul
▴ 20
1
vote
2
replies
1.1k
views
multifactorial design matrix
designmatrix
RNA-seq
limma
updated 3.1 years ago by
Gordon Smyth
50k • written 3.2 years ago by
athief
▴ 20
2
votes
4
replies
1.4k
views
DESeq2/edgeR/limma help with most appropriate design matrix
DESeq2
limma
modelmatrix
edgeR
designmatrix
updated 2.6 years ago by
Gordon Smyth
50k • written 2.6 years ago by
rebecca.lea.johnston
• 0
0
votes
2
replies
695
views
DESEQ2: Error in checkFullRank(modelMatrix)
deseq2
miRNASeq
designmatrix
Batch
updated 4.1 years ago by
Michael Love
42k • written 4.1 years ago by
anshulmbi
• 0
0
votes
2
replies
918
views
Help creating a paired sample design matrix in edgeR
edgeR
pairedsamples
designmatrix
3.3 years ago
sfidemw
• 0
2
votes
4
replies
954
views
edgeR design matrix for multiple factors
MutlipleFactors
DesignMatrix
edgeR
3.3 years ago
Debayan
▴ 20
3
votes
5
replies
1.0k
views
Design for DE analysis in tidybulk
DESeq2
designmatrix
edgeR
limma
tidybulk
updated 15 months ago by
Michael Love
42k • written 15 months ago by
aditya.m
▴ 10
2
votes
6
replies
1.2k
views
Limma DesignMatrix, dropping terms
Limma
designMatrix
updated 5.9 years ago by
Aaron Lun
★ 28k • written 5.9 years ago by
Keifa
▴ 10
0
votes
2
replies
858
views
How to create design matrix for differential analysis within the same cell-line samples?
edger
r
differentialanalysis
rnaseq
designmatrix
updated 5.0 years ago by
Aaron Lun
★ 28k • written 5.1 years ago by
Beginner
▴ 60
2
votes
4
replies
1.3k
views
design matrix for complicated experimental design in limma
limma
microarray
designmatrix
updated 7.8 years ago by
Aaron Lun
★ 28k • written 7.8 years ago by
nashchem
• 0
0
votes
3
replies
215
views
Finding DEGs by using edgeR
subsettingdata
edgeR
designmatrix
updated 4 weeks ago by
Gordon Smyth
50k • written 4 weeks ago by
prity6459
• 0
0
votes
3
replies
1.1k
views
DESeq2 Design Matrix Two Conditions and Two Treatments
designmatrix
deseq2
DESeq2
updated 2.6 years ago by
swbarnes2
★ 1.4k • written 2.6 years ago by
OST
• 0
0
votes
1
reply
187
views
Limma design matrix only showing 3/4 treatments?
limma
designmatrix
updated 6 weeks ago by
Gordon Smyth
50k • written 6 weeks ago by
avery
• 0
1
vote
0
replies
630
views
Design Matrix for multiple variables in Edge R
designmatrix
DifferentialExpression
edgeR
RNAseq
3.2 years ago
nageshprabhu.k
▴ 10
14 results • Page
1 of 1
Recent ...
Replies
Answer: Subsetting RNAseq data | voomaByGroup()
by
Gordon Smyth
50k
Judging from your MDS plot, cell types 1 and 2 look radically different, so it would make perfect sense to analyse them separately. There's…
Answer: Numerical differences in DESeq2 output depending on different design matrix cons
by
Michael Love
42k
Yes there can be small numerical differences in the estimated quantities because of how the algorithms decide to stop iterating.
Answer: DESeq2- Mysterious interaction suppresses DEGs
by
Michael Love
42k
Removing samples from one group nevertheless changes the variance estimation (dispersion) for all comparisons. So you could have pushed one…
Comment: Ensembl plants at annotationHub?
by
Daniele
• 0
Hi, I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation. Thanks a lot for replying so quickly!
Comment: Numerical differences in DESeq2 output depending on different design matrix cons
by
swbarnes2
★ 1.4k
If you restrict yourself to, say, genes with a baseMean > 50, are the numerical differences between the two designs significant?
Votes
Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
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