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Dispersion
•
reset
2
votes
2
replies
4.0k
views
DESeq2 median of ratios normalization instead of VST or rlog for ordinations?
DESeq2
medianofratiostransformation
StatisticalMethod
Normalization
dispersion
2.0 years ago
Linton
• 0
0
votes
3
replies
1.4k
views
Dispersion outliers genes
Dispersion
DESeq2
2.7 years ago
raya.fai
▴ 60
1
vote
1
reply
1.4k
views
Dispersion estimates with DESeq2
dispersionestimates
dispersion
DESeq2
estimates
deseq2
updated 3.5 years ago by
Michael Love
43k • written 3.5 years ago by
Julia
▴ 10
1
vote
2
replies
2.1k
views
Design formula in DESeq2
groups
dispersion
DESeq2
desing
4.1 years ago
m.glymenaki
• 0
4
votes
5
replies
2.3k
views
No counts, just fold change data
EdgeR
Estimation
Dispersion
4.6 years ago
Manal
• 0
0
votes
0
replies
854
views
Range value of the dispersion parameters (a1, alpha 0 and sigmad)
polyester
dispersion
updated 4.8 years ago by
Michael Love
43k • written 4.8 years ago by
catalina.gonzalez-gomez
• 0
3
votes
6
replies
4.3k
views
DESeq2: When to split multiple group samples for 'more' accurate sizefactors, dispersions etc.
Dispersion
RNA-seq
DESeq2
Multiple-group
updated 4.9 years ago by
Michael Love
43k • written 5.2 years ago by
Kelen
▴ 10
0
votes
2
replies
1.3k
views
Normalization and dispersion estimates in timeseries data with highly variable read numbers
EdgeR
dispersion
normalization
updated 5.9 years ago by
Gordon Smyth
53k • written 5.9 years ago by
Ruben.wauters
• 0
3
votes
3
replies
2.5k
views
Differential Expression Analysis in edgeR using Anova
edger
anova
gene expression
Dispersion
updated 6.6 years ago by
onlychainsaw2019
• 0 • written 7.0 years ago by
ilovesuperheroes1993
• 0
0
votes
6
replies
2.3k
views
DEXSeq dispersion outlier
DEXSeq
dispersion
pvalue
6.7 years ago
fiona.dick91
▴ 60
0
votes
5
replies
3.3k
views
Dispersion calculation by DESeq2
DESeq2
dispersion
7.0 years ago
eva-m.petit
• 0
0
votes
4
replies
2.1k
views
DESeq2 for analyzing differential expression based on dispersion across samples within groups, instead of based on expression means.
deseq2
dispersion
updated 7.0 years ago by
Michael Love
43k • written 7.0 years ago by
emilio.marmol
• 0
3
votes
3
replies
1.9k
views
DESseq2: Why can the dispersion be generelized over the conditions?
deseq2
dispersion
estimatedispersions
updated 7.6 years ago by
Ryan C. Thompson
★ 7.9k • written 7.6 years ago by
Mr.RB
▴ 20
8
votes
12
replies
13k
views
EdgeR: Explaning dispersion types to newbies
edger
dispersion
estimatedispersions
visualization
teaching
updated 7.6 years ago by
Aaron Lun
★ 29k • written 7.6 years ago by
Mr.RB
▴ 20
0
votes
13
replies
8.1k
views
DESeq2: Poor dispersion fit, even when a local or custom fit is used
deseq2
dispersion
7.8 years ago
Frederik Ziebell
▴ 30
0
votes
11
replies
2.9k
views
Strange dispersion plot
deseq2
dispersion
7.9 years ago
Moose123
• 0
5
votes
7
replies
8.7k
views
DESeq2 dispersion and p-value histograms
deseq2
rnaseq
fdrtool
dispersion
updated 8.2 years ago by
Bernd Klaus
▴ 610 • written 8.2 years ago by
rrcutler
▴ 70
1
vote
2
replies
1.5k
views
2-Factor Experiment in edgeR, Effect of no reps in one set and two reps in others
rnaseq
edger
differential expression
dispersion
updated 9.2 years ago by
Ryan C. Thompson
★ 7.9k • written 9.2 years ago by
nancyjwahl7
• 0
4
votes
3
replies
2.2k
views
How to get dispersion values for DESeq2
deseq2
dispersion
R
updated 9.6 years ago by
Michael Love
43k • written 9.6 years ago by
hiraksarkar.cs
▴ 10
1
vote
2
replies
1.8k
views
Common dispersion from estimateGLMRobustDisp()
edgeR
dispersion
updated 9.6 years ago by
Aaron Lun
★ 29k • written 9.6 years ago by
Jane Merlevede
▴ 90
1
vote
3
replies
2.6k
views
Error Estimating the NB Dispersion of a Dataset
dispersion
edgeR
updated 9.6 years ago by
Gordon Smyth
53k • written 9.6 years ago by
humberto_munoz
• 0
0
votes
1
reply
1.6k
views
How do I turn off dispersion in DESeq2?
deseq2
dispersion
updated 9.9 years ago by
Michael Love
43k • written 9.9 years ago by
hans
• 0
3
votes
2
replies
4.8k
views
DESeq2 with high dispersions
deseq2
dispersion
low counts
10.5 years ago
meeta.mistry
▴ 30
23 results • Page
1 of 1
Recent ...
Replies
Comment: Question about the filterByExpr function inputs in edgeR
by
mohammedtoufiq91
▴ 10
@gordonsmyth Yes, Gender is more a nuisance factor in our experiment, and our primary interest is to compare groups. I will just use filter…
Comment: Joining different datasets and analyzing using the group-specific condition effe
by
jason.chai
• 0
Thank you very much. I had read that and wondered if I used the recommendation in DESeq vignette, I would lose the pairing between groups? …
Comment: Questions about bacon QC and correction on EWAS results
by
sup0903
• 0
This is qq plot and histogram generated before bacon correction ![enter image description here][1] ![enter image description here][2] …
Comment: Ensembl site unresponsive via biomaRt
by
sebastianenewell
• 0
> I think this is an unrelated issue. The original post includes the > message Error: 'curl_parse_url' is not an exported object from > 'na…
Comment: Development of MSstat workflow to analyze DIA time series data
by
Gordon Smyth
53k
Are there any other explanatory factors or covariates in your experiment other than time point? Do you have biological replicates at each t…
Votes
Answer: Question about the filterByExpr function inputs in edgeR
A: DESeq2: What is the unit of DESeq2 normalized read count (VST)? Is it tag per mi
Answer: Clarification on counting in Rsubread (featureCounts)
Comment: Clarification on counting in Rsubread (featureCounts)
C: ControlGenes/ housekeeping genes Deseq2
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