Showing : outliers • reset
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Which samples to remove from analysis based on Cook's distance outliers plot
DESeq2 cooks outliers
updated 13 months ago by ★ 4.0k • written 13 months ago by • 0
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3
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960
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dealing with outliers (deseq2)
maxcooks outliers zero counts DESeq2
updated 2.1 years ago by 41k • written 2.1 years ago by ▴ 10
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2
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1.0k
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rlog vs vst for outlier identification
rlog DESeq2 vst outliers
2.3 years ago Bex • 0
8
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2
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6.7k
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handling outliers with DESeq2
RNASeqData DESeq2 Outliers
3.0 years ago paty ▴ 60
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2
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717
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Outliers
outliers Deseq2
3.0 years ago nolwenn • 0
7
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8
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2.0k
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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 3.7 years ago by 41k • written 3.7 years ago by • 0
2
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3
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1.8k
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DESeq2 count outlier replacement from Cook's threshold
deseq2 deseq rnaseq outliers count outliers
updated 5.4 years ago by 41k • written 5.4 years ago by ▴ 10
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7
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1.7k
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skewed differentially expressed gene results - DESeq2
deseq2 differential gene expression outliers
updated 5.7 years ago by ★ 7.9k • written 5.7 years ago by ▴ 20
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1.4k
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Deseq2 default Cooks distance threshold
Deseq2 outliers cookscutoff
updated 5.7 years ago by 41k • written 5.7 years ago by • 0
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2
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1.1k
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Odd Sample after SWAN normalisation, DNA methylation analysis EPIC array
minfi normalization outliers dna methylation densityplot
5.7 years ago peter.fransquet • 0
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838
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Removal of outliers after library size correction, can I save this to my dds object?
deseq2 outliers
updated 6.1 years ago by 41k • written 6.1 years ago by • 0
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6
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1.5k
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weird behaviour DESeq2 1.18.1
deseq2 outliers version
updated 6.1 years ago by 41k • written 6.1 years ago by ▴ 90
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4
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1.3k
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significant genes with DESeq2 plenty of outliers and zero counts
zero counts deseq2 odd results outliers
updated 6.2 years ago by 41k • written 6.2 years ago by ▴ 90
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1.2k
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Handling outliers in Deseq2
outliers deseq2 logfoldchange
6.3 years ago lirongrossmann ▴ 80
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10
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17k
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Differential expression due to extreme outliers in DESeq2
deseq2 outliers
6.3 years ago paul.alto ▴ 50
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3
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5.1k
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DESeq2: How to manually perform filtering and outlier detection?
deseq2 filtering outliers count outliers
updated 6.7 years ago by ★ 13k • written 6.7 years ago by ▴ 10
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4
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2.3k
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DESeq2, outlier correction, Combat, NMF
deseq2 combat outliers NMF
updated 6.9 years ago by 41k • written 6.9 years ago by • 0
1
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1
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1.3k
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Outliers - to remove or to not remove that is the question
outliers rna microarray
updated 6.9 years ago by ▴ 420 • written 6.9 years ago by ▴ 30
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8
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3.0k
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[DESeq2] Automatic outlier detection and replacement with continuous variables
deseq2 outliers RNAseq differential gene expression
7.1 years ago cajawe • 0
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9
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1.7k
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DESeq2 influence of 2 samples
deseq2 outliers differential gene expression
updated 7.2 years ago by 41k • written 7.2 years ago by ▴ 10
0
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7
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3.5k
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Deciding on cooks cutoff value DESeq2
deseq2 differential gene expression outliers bioconductor
updated 7.2 years ago by 41k • written 7.2 years ago by ▴ 10
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3
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1.0k
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DESeq outlier detection for unbalanced groups
deseq2 deseq outliers
updated 7.8 years ago by 41k • written 7.8 years ago by ▴ 30
3
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3
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1.6k
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How to define an outlier array from PCA?
microarray PCA outliers sample outliers limma
updated 8.2 years ago by ★ 28k • written 8.2 years ago by ▴ 60
8
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17
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14k
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WGCNA for RNA-Seq Sample Set, Outliers, and Spearman correlation
WGCNA Sample Size Outliers
updated 8.6 years ago by • 0 • written 9.2 years ago by ▴ 150
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0
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2.2k
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Modeling count data that is zero inflated with negative binomial hurdle regression
pscl outliers
updated 9.1 years ago by 21k • written 9.1 years ago by ▴ 30
25 results • Page 1 of 1
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Answer: Cannabis and KEGGgraph by deeenes ▴ 30
Hello, I'm a developer of the `OmnipathR` package, and I wrote [a function][1] to access certain KEGG data: library(OmnipathR) …
Answer: RNAseq:Technical replicates from different batches by Gordon Smyth 50k
I am not entirely clear what you mean by "technical" replicates in this case. Are they resequencing of the same RNA samples or are they fre…
Comment: DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, param by russ.bainer ▴ 10
Hi, I'm hitting this too. As far as I can tell my DataTrack is fine, but perhaps I am missing something. Notably the same code works on o…
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions by Chris • 0
Hi Robert, If I don't want to use all pathway in c2 gene set but only a few pathways of interested, how can I do that? So we try to get a …
Comment: How to retrieve detailed regression results from deseq2 by Weiqian ▴ 10
Hi Michael, thanks for the answer! I'll have a look : )
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Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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