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152
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Lipidomics Barplot: raw values or non-log, lipidr-normalized values?
Normalization Lipidomics lipidr
9 weeks ago David R ▴ 90
1
vote
1
reply
479
views
Going back to default settings in RCy3
Cytoscape RCy3 RCy
updated 13 months ago by ▴ 30 • written 13 months ago by ▴ 90
1
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1
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1.2k
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How to select subnetworks, or regions, with a certain number of nodes or edges with RCy3
Network RCy3
updated 13 months ago by ▴ 30 • written 13 months ago by ▴ 90
0
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2
replies
997
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TnSeq as ZINB? Alternatives in R?
DESeq2 R edgeR Python TnSeq
updated 2.1 years ago by • 0 • written 2.2 years ago by ▴ 90
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1
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2.3k
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Comment: Comment: using the goana function from edgeR
3.0 years ago David R ▴ 90
0
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3
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2.3k
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using the goana function from edgeR
RNASeq edgeR GO GOSemSim
updated 3.0 years ago by 52k • written 3.0 years ago by ▴ 90
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0
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1.7k
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Comment: C: RNA-Seq and edgeR: remarkable differences between cpms and fitted values
5.6 years ago David R ▴ 90
1
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12
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1.7k
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RNA-Seq and edgeR: remarkable differences between cpms and fitted values
RNA-Seq edger fitted values differential expression normalization
updated 5.6 years ago by 52k • written 5.6 years ago by ▴ 90
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1
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1.7k
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Comment: C: RNA-Seq and edgeR: remarkable differences between cpms and fitted values
5.6 years ago David R ▴ 90
0
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0
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3.9k
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Comment: C: limma random effects and multi level experiments
5.8 years ago David R ▴ 90
0
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1
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3.9k
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Comment: C: limma random effects and multi level experiments
5.8 years ago David R ▴ 90
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0
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3.9k
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Comment: C: limma random effects and multi level experiments
5.8 years ago David R ▴ 90
0
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0
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3.9k
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Answer: A: limma random effects and multi level experiments
5.8 years ago David R ▴ 90
1
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8
replies
3.9k
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limma random effects and multi level experiments
limma multi-level random effect
5.8 years ago David R ▴ 90
0
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0
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1.1k
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Comment: C: Circumventing statistical non-significance on a triple interaction using edgeR
6.6 years ago David R ▴ 90
0
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2
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1.1k
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Circumventing statistical non-significance on a triple interaction using edgeR
rnaseq edgeR makecontrasts interactions
updated 6.6 years ago by ★ 28k • written 6.6 years ago by ▴ 90
0
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0
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1.5k
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Comment: C: Trying to simplify Interaction analysis with edger, and propably failing to do s
6.8 years ago David R ▴ 90
1
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5
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1.5k
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Trying to simplify Interaction analysis with edger, and propably failing to do so?
rnaseq edger interactions multiple factor design differential gene expression
6.8 years ago David R ▴ 90
0
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0
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1.5k
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Comment: C: Trying to simplify Interaction analysis with edger, and propably failing to do s
6.8 years ago David R ▴ 90
0
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0
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2.0k
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Comment: C: Loads, really loads of DEGs after edgeR differential analysis
7.2 years ago David R ▴ 90
2
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9
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2.0k
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Loads, really loads of DEGs after edgeR differential analysis
rnaseq edger normalization differential gene expression
7.2 years ago David R ▴ 90
0
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2
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2.0k
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Comment: C: Loads, really loads of DEGs after edgeR differential analysis
7.2 years ago David R ▴ 90
0
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0
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2.0k
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Comment: C: Loads, really loads of DEGs after edgeR differential analysis
7.2 years ago David R ▴ 90
0
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1
reply
2.0k
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Comment: C: Loads, really loads of DEGs after edgeR differential analysis
7.2 years ago David R ▴ 90
0
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0
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1.4k
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Answer: A: RNASeq interaction between factors with edgeR when cpms tend to zero
7.2 years ago David R ▴ 90
4
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3
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1.4k
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RNASeq interaction between factors with edgeR when cpms tend to zero
rnaseq edgeR edger main and interaction effects
7.2 years ago David R ▴ 90
0
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0
replies
1.4k
views
Comment: C: Removing batch effect on edgeR when interactons are looked at
7.3 years ago David R ▴ 90
0
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1
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1.4k
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Comment: C: Removing batch effect on edgeR when interactons are looked at
7.3 years ago David R ▴ 90
2
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4
replies
1.4k
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Removing batch effect on edgeR when interactons are looked at
rnaseq edger statistics model matrix
updated 7.3 years ago by ★ 13k • written 7.3 years ago by ▴ 90
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0
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2.4k
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Comment: C: Three way-interaction on voom (limma) data, including a factor with > 2 levels
7.6 years ago David R ▴ 90
0
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0
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2.4k
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Answer: A: Three way-interaction on voom (limma) data, including a factor with > 2 levels
7.6 years ago David R ▴ 90
0
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1
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2.4k
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Comment: C: Three way-interaction on voom (limma) data, including a factor with > 2 levels
7.6 years ago David R ▴ 90
2
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6
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2.4k
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Three way-interaction on voom (limma) data, including a factor with > 2 levels
RNASeq limma voom anova
updated 2.9 years ago by ▴ 100 • written 7.6 years ago by ▴ 90
0
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0
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4.7k
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Comment: C: How to deal with low-depth RNA-Seq within DESeq2 or edgeR
8.0 years ago David R ▴ 90
0
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1
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4.7k
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Comment: C: How to deal with low-depth RNA-Seq within DESeq2 or edgeR
8.0 years ago David R ▴ 90
3
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5
replies
4.7k
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How to deal with low-depth RNA-Seq within DESeq2 or edgeR
rnaseq normalization differential gene expression edger deseq2
updated 8.0 years ago by ★ 7.9k • written 8.0 years ago by ▴ 90
0
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0
replies
4.2k
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Comment: C: DESEq2 log2FoldChange and lfcSE calculations
8.3 years ago David R ▴ 90
0
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2
replies
4.2k
views
DESEq2 log2FoldChange and lfcSE calculations
deseq2 log2fc
updated 8.3 years ago by 43k • written 8.3 years ago by ▴ 90
0
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2
replies
938
views
GenomicRanges installation problem
DESeq2 GenomicRanges
8.3 years ago David R ▴ 90
0
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0
replies
938
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Answer: A: GenomicRanges installation problem
8.3 years ago David R ▴ 90
0
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0
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2.5k
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Comment: C: edgeR: AveLogCPM after estimateGLMCommonDisp
8.3 years ago David R ▴ 90
0
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1
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2.5k
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Comment: C: edgeR: AveLogCPM after estimateGLMCommonDisp
updated 8.3 years ago by 52k • written 8.3 years ago by ▴ 90
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1
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2.5k
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Comment: C: edgeR: AveLogCPM after estimateGLMCommonDisp
8.3 years ago David R ▴ 90
0
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0
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2.5k
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Comment: C: edgeR: AveLogCPM after estimateGLMCommonDisp
8.3 years ago David R ▴ 90
1
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10
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2.5k
views
edgeR: AveLogCPM after estimateGLMCommonDisp
rnaseq edger
updated 8.3 years ago by 52k • written 8.3 years ago by ▴ 90
0
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1
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2.5k
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Comment: A: edgeR: AveLogCPM after estimateGLMCommonDisp
8.3 years ago David R ▴ 90
0
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1
reply
4.7k
views
Comment: C: edgeR glmLRT and interaction effect: an example
8.8 years ago David R ▴ 90
0
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0
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4.7k
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Comment: C: edgeR glmLRT and interaction effect: an example
8.8 years ago David R ▴ 90
3
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7
replies
4.7k
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edgeR glmLRT and interaction effect: an example
rna-seq edger glmlrt interactions
updated 8.8 years ago by 52k • written 8.8 years ago by ▴ 90
0
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0
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4.7k
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Comment: A: edgeR glmLRT and interaction effect: an example
8.8 years ago David R ▴ 90
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