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Showing :
outliers
•
reset
0
votes
3
replies
431
views
dealing with outliers (deseq2)
maxcooks
outliers
zero
counts
DESeq2
updated 10 months ago by
Michael Love
39k • written 10 months ago by
andreia
▴ 10
1
vote
2
replies
432
views
rlog vs vst for outlier identification
rlog
DESeq2
vst
outliers
13 months ago
Bex
• 0
6
votes
2
replies
3.2k
views
handling outliers with DESeq2
RNASeqData
DESeq2
Outliers
21 months ago
paty
▴ 40
0
votes
2
replies
408
views
Outliers
outliers
Deseq2
22 months ago
nolwenn
• 0
7
votes
8
replies
1.3k
views
Cook's Distance Outliers: None reported in results table and "cooksCutoff" modification has no effect
deseq2
outliers
cooks
cooks distance
updated 2.5 years ago by
Michael Love
39k • written 2.5 years ago by
donnenfieldjonah
• 0
2
votes
3
replies
1.3k
views
DESeq2 count outlier replacement from Cook's threshold
deseq2
deseq
rnaseq
outliers
count outliers
updated 4.2 years ago by
Michael Love
39k • written 4.2 years ago by
lefeverde
▴ 10
1
vote
7
replies
1.1k
views
skewed differentially expressed gene results - DESeq2
deseq2
differential gene expression
outliers
updated 4.5 years ago by
Ryan C. Thompson
7.8k • written 4.5 years ago by
CE
▴ 20
0
votes
1
reply
944
views
Deseq2 default Cooks distance threshold
Deseq2
outliers
cookscutoff
updated 4.5 years ago by
Michael Love
39k • written 4.5 years ago by
jaime.alvarez.benayas
• 0
1
vote
2
replies
762
views
Odd Sample after SWAN normalisation, DNA methylation analysis EPIC array
minfi
normalization
outliers
dna methylation
densityplot
4.5 years ago
peter.fransquet
• 0
0
votes
1
reply
508
views
Removal of outliers after library size correction, can I save this to my dds object?
deseq2
outliers
updated 4.9 years ago by
Michael Love
39k • written 4.9 years ago by
Moose123
• 0
0
votes
6
replies
999
views
weird behaviour DESeq2 1.18.1
deseq2
outliers
version
updated 4.9 years ago by
Michael Love
39k • written 4.9 years ago by
aec
▴ 90
0
votes
4
replies
851
views
significant genes with DESeq2 plenty of outliers and zero counts
zero counts
deseq2
odd results
outliers
updated 5.0 years ago by
Michael Love
39k • written 5.0 years ago by
aec
▴ 90
0
votes
1
reply
812
views
Handling outliers in Deseq2
outliers
deseq2
logfoldchange
5.1 years ago
lirongrossmann
▴ 70
0
votes
10
replies
13k
views
Differential expression due to extreme outliers in DESeq2
deseq2
outliers
5.1 years ago
paul.alto
▴ 50
1
vote
3
replies
3.9k
views
DESeq2: How to manually perform filtering and outlier detection?
deseq2
filtering
outliers
count outliers
updated 5.5 years ago by
Wolfgang Huber
13k • written 5.5 years ago by
heikki.sarin
▴ 10
0
votes
4
replies
1.7k
views
DESeq2, outlier correction, Combat, NMF
deseq2
combat
outliers
NMF
updated 5.7 years ago by
Michael Love
39k • written 5.7 years ago by
noname
• 0
1
vote
1
reply
859
views
Outliers - to remove or to not remove that is the question
outliers
rna
microarray
updated 5.7 years ago by
chris86
▴ 400 • written 5.7 years ago by
bhgyu
▴ 30
1
vote
8
replies
2.1k
views
[DESeq2] Automatic outlier detection and replacement with continuous variables
deseq2
outliers
RNAseq
differential gene expression
5.9 years ago
cajawe
• 0
0
votes
9
replies
1.3k
views
DESeq2 influence of 2 samples
deseq2
outliers
differential gene expression
updated 6.0 years ago by
Michael Love
39k • written 6.0 years ago by
gregory.l.stone
▴ 10
0
votes
7
replies
2.6k
views
Deciding on cooks cutoff value DESeq2
deseq2
differential gene expression
outliers
bioconductor
updated 6.0 years ago by
Michael Love
39k • written 6.0 years ago by
gregory.l.stone
▴ 10
0
votes
3
replies
802
views
DESeq outlier detection for unbalanced groups
deseq2
deseq
outliers
updated 6.6 years ago by
Michael Love
39k • written 6.6 years ago by
akaever
▴ 30
3
votes
3
replies
1.3k
views
How to define an outlier array from PCA?
microarray
PCA
outliers
sample outliers
limma
updated 7.0 years ago by
Aaron Lun
★ 28k • written 7.0 years ago by
serpalma.v
▴ 60
6
votes
17
replies
12k
views
WGCNA for RNA-Seq Sample Set, Outliers, and Spearman correlation
WGCNA
Sample Size
Outliers
updated 7.4 years ago by
mh.manoj
• 0 • written 8.0 years ago by
brohawndg
▴ 80
0
votes
0
replies
1.9k
views
Modeling count data that is zero inflated with negative binomial hurdle regression
pscl
outliers
updated 7.9 years ago by
Sean Davis
21k • written 7.9 years ago by
mrk.carty
▴ 30
24 results • Page
1 of 1
Recent ...
Replies
Comment: DESeq2 and heatmap for multiple comparisons
by
artem.vorobyev
• 0
this I already did. My question is how to visualize differentially expressed genes on the heatmap for all 3 groups (healty->lesion->treat…
Comment: athPkgBuilder data source :missing probesets
by
nicklesteele532
• 0
> >>> > >>> How to handle the one probeset to multiple locus mappings? I can > >think 3 > >>> possible solutions: > >>> 1. pick the "best" …
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Poonam
• 0
> sum(width(gr_toexclude)) [1] 2713499861 I excluded everything which was not locus. If small rna locus is from 2000 to 4000 and next locu…
Comment: Why in Bioconductor community people rarely upvote questions?
by
Hervé Pagès
16k
BTW I fail to see how the lack of upvotes to a question would be discouraging as long as you get a good answer. OTOH I can see how failing …
Answer: DESeq2 and heatmap for multiple comparisons
by
swbarnes2
★ 1.2k
If you want to know what genes are different between lesion and treated, compare them to each other.
Votes
Comment: recount 3 protect read length metadata
Answer: Doubts about manipulation and annotation of microarray files deposited at GEO
C: Batch correction in DESeq2
Comment: Strand information in a GAlignmentsList object derived from strand-specific pair
Comment: Strand information in a GAlignmentsList object derived from strand-specific pair
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