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Showing :
dispersion
•
reset
2
votes
2
replies
3.0k
views
DESeq2 median of ratios normalization instead of VST or rlog for ordinations?
DESeq2
medianofratiostransformation
StatisticalMethod
Normalization
dispersion
15 months ago
Linton
• 0
0
votes
3
replies
1.1k
views
Dispersion outliers genes
Dispersion
DESeq2
23 months ago
raya.fai
▴ 60
1
vote
1
reply
1.2k
views
Dispersion estimates with DESeq2
dispersionestimates
dispersion
DESeq2
estimates
deseq2
updated 2.7 years ago by
Michael Love
43k • written 2.7 years ago by
Julia
▴ 10
1
vote
2
replies
1.8k
views
Design formula in DESeq2
groups
dispersion
DESeq2
desing
3.4 years ago
m.glymenaki
• 0
4
votes
5
replies
1.7k
views
No counts, just fold change data
EdgeR
Estimation
Dispersion
3.9 years ago
Manal
• 0
0
votes
0
replies
716
views
Range value of the dispersion parameters (a1, alpha 0 and sigmad)
polyester
dispersion
updated 4.0 years ago by
Michael Love
43k • written 4.0 years ago by
catalina.gonzalez-gomez
• 0
3
votes
6
replies
3.8k
views
DESeq2: When to split multiple group samples for 'more' accurate sizefactors, dispersions etc.
Dispersion
RNA-seq
DESeq2
Multiple-group
updated 4.2 years ago by
Michael Love
43k • written 4.5 years ago by
Kelen
▴ 10
0
votes
2
replies
1.1k
views
Normalization and dispersion estimates in timeseries data with highly variable read numbers
EdgeR
dispersion
normalization
updated 5.2 years ago by
Gordon Smyth
52k • written 5.2 years ago by
Ruben.wauters
• 0
3
votes
3
replies
2.2k
views
Differential Expression Analysis in edgeR using Anova
edger
anova
gene expression
Dispersion
updated 5.8 years ago by
onlychainsaw2019
• 0 • written 6.3 years ago by
ilovesuperheroes1993
• 0
0
votes
6
replies
2.1k
views
DEXSeq dispersion outlier
DEXSeq
dispersion
pvalue
6.0 years ago
fiona.dick91
▴ 60
0
votes
5
replies
3.0k
views
Dispersion calculation by DESeq2
DESeq2
dispersion
6.3 years ago • updated 6.2 years ago
eva-m.petit
• 0
0
votes
4
replies
1.8k
views
DESeq2 for analyzing differential expression based on dispersion across samples within groups, instead of based on expression means.
deseq2
dispersion
updated 6.3 years ago by
Michael Love
43k • written 6.3 years ago by
emilio.marmol
• 0
3
votes
3
replies
1.7k
views
DESseq2: Why can the dispersion be generelized over the conditions?
deseq2
dispersion
estimatedispersions
updated 6.8 years ago by
Ryan C. Thompson
★ 7.9k • written 6.8 years ago by
Mr.RB
▴ 20
8
votes
12
replies
12k
views
EdgeR: Explaning dispersion types to newbies
edger
dispersion
estimatedispersions
visualization
teaching
updated 6.8 years ago by
Aaron Lun
★ 28k • written 6.8 years ago by
Mr.RB
▴ 20
0
votes
13
replies
7.3k
views
DESeq2: Poor dispersion fit, even when a local or custom fit is used
deseq2
dispersion
7.0 years ago
Frederik Ziebell
▴ 30
0
votes
11
replies
2.6k
views
Strange dispersion plot
deseq2
dispersion
7.2 years ago
Moose123
• 0
5
votes
7
replies
8.1k
views
DESeq2 dispersion and p-value histograms
deseq2
rnaseq
fdrtool
dispersion
updated 7.5 years ago by
Bernd Klaus
▴ 610 • written 7.5 years ago by
rrcutler
▴ 70
1
vote
2
replies
1.3k
views
2-Factor Experiment in edgeR, Effect of no reps in one set and two reps in others
rnaseq
edger
differential expression
dispersion
updated 8.5 years ago by
Ryan C. Thompson
★ 7.9k • written 8.5 years ago by
nancyjwahl7
• 0
4
votes
3
replies
2.0k
views
How to get dispersion values for DESeq2
deseq2
dispersion
R
updated 8.8 years ago by
Michael Love
43k • written 8.8 years ago by
hiraksarkar.cs
▴ 10
1
vote
2
replies
1.6k
views
Common dispersion from estimateGLMRobustDisp()
edgeR
dispersion
updated 8.9 years ago by
Aaron Lun
★ 28k • written 8.9 years ago by
Jane Merlevede
▴ 90
1
vote
3
replies
2.4k
views
Error Estimating the NB Dispersion of a Dataset
dispersion
edgeR
updated 8.9 years ago by
Gordon Smyth
52k • written 8.9 years ago by
humberto_munoz
• 0
0
votes
1
reply
1.5k
views
How do I turn off dispersion in DESeq2?
deseq2
dispersion
updated 9.2 years ago by
Michael Love
43k • written 9.2 years ago by
hans
• 0
3
votes
2
replies
4.5k
views
DESeq2 with high dispersions
deseq2
dispersion
low counts
9.8 years ago • updated 9.7 years ago
meeta.mistry
▴ 30
23 results • Page
1 of 1
Recent ...
Replies
Comment: Controlling for batch and estrus cycle using DESeq2 in RNA-seq analysis
by
donnycrimson
• 0
One potential workaround might be to adjust for these factors using a combination of design matrices perhaps including batch as a covariate…
Comment: DESeq2 Design controlling for gender
by
donnycrimson
• 0
On a lighter note, while you are tackling such complex data, you might enjoy a quick break playing the [Slope Game](https://slopegame.lol)…
Comment: MetaDE.pvalue: Error in xj[i]: invalid subscript type 'list'
by
donnycrimson
• 0
Have you considered streamlining how you handle data input to mitigate these issues. It might help to define the parameters more strictly …
Comment: CluserProfiler message "No gene can be mapped"
by
Carolina
• 0
There is, the overlap that reads out is ( Genes in common: 368 of 368 ). Here is the link for [background genes][1], [term2gene][2], [term2…
Comment: Differing results with DESeq2
by
JKim
• 0
My two cents. I think it would be more straightforward if you use cellmeans model. Have a look at [A guide to creating design matrices for …
Votes
remove X and Y chromosome genes in RNA-seq data using DESeq2 pipeline
How to remove X & Y chromosome genes from RNAseq data
Is it advisable to remove X and Y chromosome genes in mouse bulk RNA-seq data at the level of the count matrix?
A: Unbalanced experiment with multiple samples from each patient.
A: Understanding contrasts limma
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