Showing : DESEQ2 • reset
1
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22
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6.4k
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DESEq2 Large Memory When Parallel
deseq2
updated 8.1 years ago by 43k • written 8.1 years ago by ▴ 10
2
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1
reply
1.4k
views
Receiving error trying to import matrix into DESeq2
deseq2 deseq differential binding analysis
updated 8.1 years ago by ▴ 60 • written 8.1 years ago by ▴ 60
0
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1
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1.4k
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Running model separately for each cell line or as the same model?
limma deseq2 edger rnaseq
updated 8.1 years ago by ▴ 120 • written 8.1 years ago by ▴ 60
2
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1
reply
821
views
DESeq2, interpretation of contrasts, effect of non-contrasted conditions
deseq2
updated 8.1 years ago by 43k • written 8.1 years ago by ▴ 230
3
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2
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4.5k
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results(dds) error: couldn't find results. you should first run DESeq()
deseq2 results error
8.1 years ago hs.lansdell ▴ 20
2
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1
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1.2k
views
Is my design appropriate for contrast in DESeq2?
deseq2 design and contrast matrix rnaseq
updated 8.1 years ago by ▴ 690 • written 8.1 years ago by • 0
3
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7
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3.2k
views
PCA based on a subset of genes
deseq2
updated 8.1 years ago by 43k • written 8.1 years ago by ▴ 20
4
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8
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8.9k
views
Scaling genes to have unit variance for clustering / heatmaps with DESeq2
deseq2 heatmap.2 bicluster pheatmap
updated 8.1 years ago by 43k • written 10.2 years ago by ▴ 10
1
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3
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5.7k
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Log2 fold change value in DESeq2
deseq2 rnaseq
written 8.1 years ago by • 0
3
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7
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2.5k
views
DESeq2 design formula: how to account for twin data (MZ and DZ)?
DESeq2 twins design formula RNA-seq
8.1 years ago Simone • 0
2
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3
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4.9k
views
Deseq2: padj value changes with varying alpha
deseq2 counts rnaseq
updated 8.1 years ago by 43k • written 8.1 years ago by ▴ 10
2
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6
replies
1.3k
views
different statiscal results in DESeq2 from the same samples
deseq2
updated 8.1 years ago by 43k • written 8.1 years ago by • 0
1
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1
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1.5k
views
DESeq2 parallel argument for lfcShrink
deseq2 lfcshrink
updated 8.1 years ago by 43k • written 8.1 years ago by • 0
1
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5
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1.9k
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Time course DE analysis in DESeq2 with Wald test
DESeq2 time-series
updated 8.1 years ago by 43k • written 8.1 years ago by ▴ 10
12
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1
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8.4k
views
identifying the samples on plotPCA
deseq2 plotpca PCa
updated 8.1 years ago by 43k • written 8.1 years ago by ▴ 80
0
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4
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2.6k
views
DEseq2: any problem with unbalanced number of sample in normal/tumor study?
deseq2 rnaseq tcga
updated 8.1 years ago by 43k • written 8.1 years ago by ▴ 60
1
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4
replies
2.4k
views
expression matrix with varianceStabilizingTransformation
deseq2 variancestabilizingtransformation rnaseq
updated 8.1 years ago by 43k • written 8.1 years ago by ▴ 80
4
votes
2
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1.7k
views
Normalize to additional variable (brain weight) in DESeq2
deseq2 cqn normalization normalized counts
updated 8.1 years ago by 43k • written 8.1 years ago by • 0
4
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8
replies
2.2k
views
When doing differential gene analysis, why measuring genes based on exons? Can we measure genes based on CDS?
rnaseq featurecounts edger deseq2
updated 8.1 years ago by 53k • written 8.1 years ago by ▴ 20
0
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7
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1.9k
views
Model matrix not full rank
deseq2 linear combination model matrix
updated 8.1 years ago by 43k • written 8.1 years ago by • 0
0
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5
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1.1k
views
deseq2 low read input
deseq2
updated 8.1 years ago by 43k • written 8.1 years ago by • 0
0
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1
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1.3k
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miR DE analysis using DeSeq2
DE analysis miR deseq2 mirplant
updated 8.1 years ago by 43k • written 8.1 years ago by • 0
2
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3
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2.5k
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What's the criteria used by DESeq2 to calculate log2 fold changes in time-course experiments?
deseq2 timecourse
updated 3.4 years ago by • 0 • written 8.1 years ago by • 0
0
votes
3
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1.8k
views
replicates and groups of samples: what's the right DESeq2 model?
deseq2 rnaseq differential gene expression
updated 8.1 years ago by ▴ 690 • written 8.1 years ago by • 0
1
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8
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2.3k
views
Strange MA plot
rnaseq deseq2
updated 8.1 years ago by 43k • written 8.1 years ago by ▴ 20
0
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4
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4.9k
views
DESeq failure after update: unable to find an inherited method for function mcols for signature Rle
deseq2 deseq r version compatibility
updated 8.1 years ago by 43k • written 8.1 years ago by • 0
0
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3
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1.1k
views
Dseq single factor and 4 levels experiment design
rnaseq deseq2
updated 8.1 years ago by 43k • written 8.1 years ago by • 0
5
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1
reply
3.3k
views
Difference between heatmap using Euclidian distance and Poisson distance
deseq2 euclidean sample distance rnaseq
updated 8.1 years ago by 43k • written 8.1 years ago by ▴ 20
0
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5
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8.1k
views
unable to find an inherited method for function counts for signature DESeqTransform
deseq2 counts DESeqtransform variance deviation
updated 8.1 years ago by 43k • written 8.1 years ago by • 0
2
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8
replies
1.9k
views
Deseq2 result for a variable
deseq2 differential expression results
updated 8.1 years ago by 43k • written 8.1 years ago by ▴ 10
1
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2
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739
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DE Analysis strategies for designs that are "not full rank"
deseq2 rnaseq
updated 8.1 years ago by 43k • written 8.1 years ago by • 0
11
votes
3
replies
4.3k
views
Testing three-way interactions in DESeq2
deseq2 rna-seq rnaseq interactions
updated 8.1 years ago by 43k • written 8.1 years ago by ▴ 60
6
votes
3
replies
7.6k
views
deseq2 correcting for batch effects
deseq2 batch effect removebatcheffect() design matrix
updated 8.1 years ago by 43k • written 8.1 years ago by ★ 1.5k
1
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3
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3.5k
views
DESeq2 Paired samples Before and after treatment
deseq2 bioconductor
8.1 years ago JK Kim ▴ 30
0
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1
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1.0k
views
DESeq2 for ChIP on chip microarrays
deseq2 microarray nimblegene ratio limma
updated 8.1 years ago by 43k • written 8.1 years ago by ★ 1.5k
5
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4
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1.4k
views
2 cells x 2 media x 2 conditions
deseq2
updated 8.1 years ago by ▴ 690 • written 8.1 years ago by ▴ 10
28
votes
7
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14k
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Effect of lfcThreshold on p-value in DESeq2
deseq2 rnaseq statistics
updated 2.1 years ago by ▴ 10 • written 8.1 years ago by ▴ 40
3
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4
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2.4k
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DESeq2 design formula: single control for multiple conditions [RIP-seq]
deseq2 RIP
8.1 years ago António Miguel de Jesus Domingues ▴ 510
4
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5
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1.8k
views
Differential gene expression: common changes in response to treatment across cell types
deseq2 differential gene expression
updated 8.1 years ago by ▴ 690 • written 8.1 years ago by ▴ 10
0
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2
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1.5k
views
Discrepancy in extracting contrasts
deseq2 resultsnames batch effect contrast
updated 8.1 years ago by 43k • written 8.1 years ago by ▴ 10
5
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2
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1.7k
views
DESeq2 contrast give different results for same comparison using standard analysis
rnaseq deseq2
8.1 years ago Letícia ▴ 10
0
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9
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6.5k
views
DESeq2 unequal sample sizes
deseq2 deseq sample size
8.1 years ago MrHodor • 0
3
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3
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1.9k
views
Kallisto with tximport gives different results with asymmetrical experimental design
kallisto deseq2 tximport
updated 8.1 years ago by 43k • written 8.1 years ago by ▴ 20
2
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9
replies
2.9k
views
FDR adjustment in Time-Course DATA DESEQ2
deseq2 fdrtool genomicalignments
updated 8.1 years ago by 43k • written 8.1 years ago by ▴ 20
0
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2
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1.7k
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Atomic vector error in DESeq2
deseq2
8.1 years ago jpkarl ▴ 10
3
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13
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5.8k
views
[DESeq2] Difference between results from using contrast option and using name option of results() function
DESeq2
8.1 years ago fkuo ▴ 10
0
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4
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1.5k
views
Design for DESeq2
LRT deseq2 multiple factor design
8.1 years ago sally_b86 • 0
1
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2
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1.7k
views
DiffBind DESeq2 MA plot skewed
diffbind deseq2 maplot
updated 8.1 years ago by ★ 5.2k • written 8.1 years ago by ▴ 60
0
votes
3
replies
3.1k
views
DESeq2 MA plot look different
deseq2 maplot
updated 8.1 years ago by 43k • written 8.1 years ago by ▴ 10
4
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9
replies
12k
views
DESeq2, no replicate
deseq2 no replicates high p-adj values
updated 3.3 years ago by 43k • written 8.1 years ago by • 0
4,839 results • Page 71 of 97
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Answer: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
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