Showing : Outliers • reset
3
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handling outliers with DESeq2
RNASeqData DESeq2 Outliers
19 days ago paty ▴ 20
0
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2
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106
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Outliers
outliers Deseq2
5 weeks ago nolwenn • 0
7
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8
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387
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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 9 months ago by 33k • written 9 months ago by • 0
2
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3
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667
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DESeq2 count outlier replacement from Cook's threshold
deseq2 deseq rnaseq outliers count outliers
updated 2.4 years ago by 33k • written 2.4 years ago by ▴ 10
1
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7
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570
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skewed differentially expressed gene results - DESeq2
deseq2 differential gene expression outliers
updated 2.8 years ago by 7.6k • written 2.8 years ago by ▴ 10
0
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1
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442
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Deseq2 default Cooks distance threshold
Deseq2 outliers cookscutoff
updated 2.8 years ago by 33k • written 2.8 years ago by • 0
1
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2
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427
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Odd Sample after SWAN normalisation, DNA methylation analysis EPIC array
minfi normalization outliers dna methylation densityplot
2.8 years ago peter.fransquet • 0
0
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1
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272
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Removal of outliers after library size correction, can I save this to my dds object?
deseq2 outliers
updated 3.2 years ago by 33k • written 3.2 years ago by • 0
0
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6
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620
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weird behaviour DESeq2 1.18.1
deseq2 outliers version
updated 3.2 years ago by 33k • written 3.2 years ago by ▴ 70
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4
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457
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significant genes with DESeq2 plenty of outliers and zero counts
zero counts deseq2 odd results outliers
updated 3.3 years ago by 33k • written 3.3 years ago by ▴ 70
0
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1
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401
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Handling outliers in Deseq2
outliers deseq2 logfoldchange
3.3 years ago lirongrossmann ▴ 60
0
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10
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847
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Differential expression due to extreme outliers in DESeq2
deseq2 outliers
3.4 years ago paul.alto ▴ 50
1
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3
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2.2k
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DESeq2: How to manually perform filtering and outlier detection?
deseq2 filtering outliers count outliers
updated 3.8 years ago by 13k • written 3.8 years ago by • 0
0
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4
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1.2k
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DESeq2, outlier correction, Combat, NMF
deseq2 combat outliers NMF
updated 4.0 years ago by 33k • written 4.0 years ago by • 0
1
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1
reply
556
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Outliers - to remove or to not remove that is the question
outliers rna microarray
updated 4.0 years ago by ▴ 390 • written 4.0 years ago by ▴ 30
1
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8
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1.1k
views
[DESeq2] Automatic outlier detection and replacement with continuous variables
deseq2 outliers RNAseq differential gene expression
4.2 years ago cajawe • 0
0
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9
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881
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DESeq2 influence of 2 samples
deseq2 outliers differential gene expression
updated 4.3 years ago by 33k • written 4.3 years ago by ▴ 10
0
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7
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1.8k
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Deciding on cooks cutoff value DESeq2
deseq2 differential gene expression outliers bioconductor
updated 4.3 years ago by 33k • written 4.3 years ago by ▴ 10
0
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3
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585
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DESeq outlier detection for unbalanced groups
deseq2 deseq outliers
updated 4.8 years ago by 33k • written 4.8 years ago by ▴ 30
3
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3
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1.1k
views
How to define an outlier array from PCA?
microarray PCA outliers sample outliers limma
updated 5.3 years ago by ★ 26k • written 5.3 years ago by ▴ 60
6
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17
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10k
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WGCNA for RNA-Seq Sample Set, Outliers, and Spearman correlation
WGCNA Sample Size Outliers
updated 5.7 years ago by • 0 • written 6.2 years ago by ▴ 80
0
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0
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1.6k
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Modeling count data that is zero inflated with negative binomial hurdle regression
pscl outliers
updated 6.2 years ago by 21k • written 6.2 years ago by ▴ 30
22 results • Page 1 of 1
Recent ...
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Comment: phenotypic table for DESeqDataSetFromHTSeqCount by Michael Love 33k
Oh sorry I didn't see any code including a `directory` argument in your post. Then to debug do: ``` file.exists(file.path(directory, samp…
Comment: phenotypic table for DESeqDataSetFromHTSeqCount by rbenel ▴ 20
The vector contains just `FALSE`... So where is the `directory` parameter set to read files from? Currently I have `directory` set to a t…
Comment: `aperm`, `realize`, `writeHDF5Array`, and `ReshapedHDF5Array` are block size awa by Koki • 0
Ok, I got the gist of it. If I have the same situation of the previous case (https://support.bioconductor.org/p/9136736/), where I have to…
Answer: DESeq2 Design matrix by Michael Love 33k
Usually one would use a single design and extract comparisons. With a complex design, you should partner with someone familiar with linear …
Comment: `aperm`, `realize`, `writeHDF5Array`, and `ReshapedHDF5Array` are block size awa by Hervé Pagès 14k
> For example, the following codes use a combination of delayed operation and block-processed operation but the code as a whole does not ex…
Votes
Answer: erorr in normalization with DiffBind: pv$binding[, colnum] <- pv$peaks[[i]]$RPKM
Answer: phenotypic table for DESeqDataSetFromHTSeqCount
Comment: `aperm`, `realize`, `writeHDF5Array`, and `ReshapedHDF5Array` are block size awa
Answer: Error: C stack usage of HDF5Array
Answer: "dim<-" against on-disk arrays
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