Showing : outliers • reset
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Which samples to remove from analysis based on Cook's distance outliers plot
DESeq2 cooks outliers
updated 9 months ago by ★ 3.6k • written 9 months ago by • 0
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3
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789
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dealing with outliers (deseq2)
maxcooks outliers zero counts DESeq2
updated 20 months ago by 41k • written 21 months ago by ▴ 10
1
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2
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836
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rlog vs vst for outlier identification
rlog DESeq2 vst outliers
23 months ago Bex • 0
6
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2
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5.7k
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handling outliers with DESeq2
RNASeqData DESeq2 Outliers
2.6 years ago paty ▴ 40
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2
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637
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Outliers
outliers Deseq2
2.7 years ago nolwenn • 0
7
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8
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1.8k
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Cook's Distance Outliers: None reported in results table and "cooksCutoff" modification has no effect
deseq2 outliers cooks cooks distance
updated 3.3 years ago by 41k • written 3.3 years ago by • 0
2
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3
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1.7k
views
DESeq2 count outlier replacement from Cook's threshold
deseq2 deseq rnaseq outliers count outliers
updated 5.0 years ago by 41k • written 5.0 years ago by ▴ 10
1
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7
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1.5k
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skewed differentially expressed gene results - DESeq2
deseq2 differential gene expression outliers
updated 5.4 years ago by 7.8k • written 5.4 years ago by ▴ 20
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1
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1.2k
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Deseq2 default Cooks distance threshold
Deseq2 outliers cookscutoff
updated 5.4 years ago by 41k • written 5.4 years ago by • 0
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2
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980
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Odd Sample after SWAN normalisation, DNA methylation analysis EPIC array
minfi normalization outliers dna methylation densityplot
5.4 years ago peter.fransquet • 0
0
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1
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736
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Removal of outliers after library size correction, can I save this to my dds object?
deseq2 outliers
updated 5.8 years ago by 41k • written 5.8 years ago by • 0
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6
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1.4k
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weird behaviour DESeq2 1.18.1
deseq2 outliers version
updated 5.8 years ago by 41k • written 5.8 years ago by ▴ 90
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4
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1.2k
views
significant genes with DESeq2 plenty of outliers and zero counts
zero counts deseq2 odd results outliers
updated 5.8 years ago by 41k • written 5.8 years ago by ▴ 90
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1
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1.1k
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Handling outliers in Deseq2
outliers deseq2 logfoldchange
5.9 years ago lirongrossmann ▴ 80
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10
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16k
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Differential expression due to extreme outliers in DESeq2
deseq2 outliers
6.0 years ago paul.alto ▴ 50
1
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3
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4.8k
views
DESeq2: How to manually perform filtering and outlier detection?
deseq2 filtering outliers count outliers
updated 6.3 years ago by 13k • written 6.3 years ago by ▴ 10
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4
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2.1k
views
DESeq2, outlier correction, Combat, NMF
deseq2 combat outliers NMF
updated 6.5 years ago by 41k • written 6.5 years ago by • 0
1
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1
reply
1.1k
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Outliers - to remove or to not remove that is the question
outliers rna microarray
updated 6.5 years ago by ▴ 410 • written 6.5 years ago by ▴ 30
1
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8
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2.8k
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[DESeq2] Automatic outlier detection and replacement with continuous variables
deseq2 outliers RNAseq differential gene expression
6.7 years ago cajawe • 0
0
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9
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1.6k
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DESeq2 influence of 2 samples
deseq2 outliers differential gene expression
updated 6.8 years ago by 41k • written 6.8 years ago by ▴ 10
0
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7
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3.3k
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Deciding on cooks cutoff value DESeq2
deseq2 differential gene expression outliers bioconductor
updated 6.9 years ago by 41k • written 6.9 years ago by ▴ 10
0
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3
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967
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DESeq outlier detection for unbalanced groups
deseq2 deseq outliers
updated 7.4 years ago by 41k • written 7.4 years ago by ▴ 30
3
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3
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1.5k
views
How to define an outlier array from PCA?
microarray PCA outliers sample outliers limma
updated 7.9 years ago by ★ 28k • written 7.9 years ago by ▴ 60
8
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17
replies
14k
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WGCNA for RNA-Seq Sample Set, Outliers, and Spearman correlation
WGCNA Sample Size Outliers
updated 8.3 years ago by • 0 • written 8.8 years ago by ▴ 150
0
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0
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2.1k
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Modeling count data that is zero inflated with negative binomial hurdle regression
pscl outliers
updated 8.7 years ago by 21k • written 8.7 years ago by ▴ 30
25 results • Page 1 of 1
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Answer: Agilent Microarray Gene Oncology analysis gone wrong by Gordon Smyth 49k
Your use of `coef=1` is incorrect, for reasons explained in the limma User's Guide. If you had simply left `coef` at the default, then thin…
Comment: Normalised counts from RUVg in RUVSeq by Shaimaa Gamal • 0
Hello I was wondering if I should use ruv-corrected counts and ruv lib sizes to create a DGE object that can be used later for DE analysis …
Comment: enrichGOgradient color change by James W. MacDonald 64k
You could look at my answer and extrapolate from there.
Comment: enrichGOgradient color change by WU • 0
I would like to ask how to make the counts legend black. Thank you.
Answer: Problems with FLOWAI by Alexander • 0
Hi. The length of the file path, or whether the files are local on the computer has nothing to do with it in my experience. I watched the a…
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Answer: enrichGOgradient color change
Answer: Filter genes by expression for voomLmFit
Answer: Filter genes by expression for voomLmFit
Answer: Filter genes by expression for voomLmFit
How to know if I should use voomWithQualityWeights() or not?
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