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Model
•
reset
1
vote
3
replies
913
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baseMean differencies according to the model
Deseq2
model
7.8 years ago
jrivera
• 0
1
vote
7
replies
2.2k
views
Limma linear models
limma
goodness
fit
linear
model
updated 9.3 years ago by
Gordon Smyth
50k • written 9.3 years ago by
nonCodingGene
▴ 10
1
vote
8
replies
1.5k
views
EdgeR model not of full rank
EdgeR
rank
model
6.9 years ago
philip.freda
• 0
0
votes
1
reply
730
views
LRT test in DESeq2 decide on the level of comparisons
DESeq2
LRT
Model
updated 2.2 years ago by
Michael Love
42k • written 2.2 years ago by
JaneDoe
• 0
0
votes
1
reply
3.0k
views
DESeq2 model with blocking factor + interaction term
deseq2
model
updated 8.9 years ago by
Simon Anders
★ 3.7k • written 8.9 years ago by
da.de
▴ 30
5
votes
2
replies
1.8k
views
DESeq2 design matrix for timecourse
deseq2
experimental design
timecourse
rnaseq
model
updated 7.6 years ago by
Michael Love
42k • written 7.6 years ago by
athief
▴ 20
0
votes
2
replies
966
views
Design formula in DESeq2
model
BatchEffect
hidden
Design
DESeq2
2.6 years ago
m.glymenaki
• 0
14
votes
19
replies
9.0k
views
DESeq2 Model Design
DESeq2
linear model
model
updated 3.0 years ago by
Michael Love
42k • written 9.5 years ago by
andrew.j.skelton73
▴ 370
5
votes
5
replies
2.3k
views
edgeR : How to test differential exon expression on case/control study across all time points when accounting for the within subject variability?
egdeR
multiple time points
model.matrix
differential exon usage
model
6.8 years ago
heikki.sarin
▴ 10
4
votes
8
replies
2.2k
views
edgeR: How to set model for glmQLFTest in time-course experiment (compared to glmLRT?
edgeR
edger "glmqlftest()"
timecourse
model
updated 6.8 years ago by
Ryan C. Thompson
★ 7.9k • written 6.8 years ago by
heikki.sarin
▴ 10
3
votes
8
replies
2.0k
views
Differential drug dosage effect between two genotypes in limma
limma
dose-response
linear model
model
formula
updated 6.5 years ago by
James W. MacDonald
66k • written 6.5 years ago by
biominer
▴ 10
0
votes
2
replies
945
views
Diffbind with multiple blocking factors
diffbind
blocking
model
updated 3.6 years ago by
Rory Stark
★ 5.2k • written 4.6 years ago by
melnuesch
▴ 10
1
vote
3
replies
1.0k
views
interaction models DESeq2
deseq2
interaction
model
updated 3.9 years ago by
Michael Love
42k • written 3.9 years ago by
aec
▴ 90
1
vote
1
reply
1.1k
views
DESeq2 Error in checkFullRank(modelMatrix)
DESeq2
ErrorincheckFullRank(modelMatrix)
model
updated 3.5 years ago by
Michael Love
42k • written 3.5 years ago by
Isabelle
• 0
0
votes
1
reply
1.4k
views
Proper dataset form and model for DEXeq analysis
dexseq
rna-seq
model.matrix
model
updated 6.8 years ago by
Michael Love
42k • written 6.8 years ago by
heikki.sarin
▴ 10
0
votes
0
replies
1.2k
views
How construct a model for case-control time-course experiment in DEXseq?
dexseq
timecourse
model.matrix
model
6.8 years ago
heikki.sarin
▴ 10
16 results • Page
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Comment: How to add Ensembl ids after Pseudobulk analysis by DESeq2
by
BioinfGuru
▴ 30
I would use biomaRt. This is what happens when annotation occurs to early. If possible I would run the DEG analysis on the original output…
Comment: Volcano plot of scRNA-seq data not "centered"
by
ATpoint
★ 4.2k
My comment was generic. If your experiment causes drastic shifts then the situation might be different. The advise is the same: Try to use …
Comment: conumee with Infinium MethylationEPIC v2.0
by
Maximus
• 0
Hi Sole, If there is a combined mixture of MSet of 450K, EPIC and EPICv2, how should I create an annotation object? I tried to create anno…
Comment: Volcano plot of scRNA-seq data not "centered"
by
tjl
• 0
Thank you both. The code is below, simplified a bit for simplicity. ATpoint, your suggestion re: the top 20% of genes by baseMean makes me …
Comment: Cannot install oligo on Fedora
by
James W. MacDonald
66k
Wait a minute. The `oligo` package is *supposed to* be using `zlibbioc`, but apparently it is not. I get the same thing as you do, where it…
Votes
A: Analyzing data without replicates using DiffBind
A: Analyzing data without replicates using DiffBind
DeSeq2 results converting ENSG IDs to Gene Symbols, more than one ENSG ID per Gene symbol
DESeq2 swap ensembl gene id rownames with gene symbol column
A: DeSeq2 results converting ENSG IDs to Gene Symbols, more than one ENSG ID per Ge
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