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1
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269
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Going back to default settings in RCy3
Cytoscape RCy3 RCy
updated 3 months ago by ▴ 20 • written 4 months ago by ▴ 90
1
vote
1
reply
831
views
How to select subnetworks, or regions, with a certain number of nodes or edges with RCy3
Network RCy3
updated 3 months ago by ▴ 20 • written 4 months ago by ▴ 90
0
votes
2
replies
714
views
TnSeq as ZINB? Alternatives in R?
DESeq2 R edgeR Python TnSeq
updated 16 months ago by • 0 • written 17 months ago by ▴ 90
0
votes
3
replies
1.7k
views
using the goana function from edgeR
RNASeq edgeR GO GOSemSim
updated 2.3 years ago by 50k • written 2.3 years ago by ▴ 90
1
vote
12
replies
1.4k
views
RNA-Seq and edgeR: remarkable differences between cpms and fitted values
RNA-Seq edger fitted values differential expression normalization
updated 4.9 years ago by 50k • written 4.9 years ago by ▴ 90
1
vote
8
replies
3.1k
views
limma random effects and multi level experiments
limma multi-level random effect
5.0 years ago David R ▴ 90
0
votes
2
replies
927
views
Circumventing statistical non-significance on a triple interaction using edgeR
rnaseq edgeR makecontrasts interactions
updated 5.8 years ago by ★ 28k • written 5.8 years ago by ▴ 90
1
vote
5
replies
1.3k
views
Trying to simplify Interaction analysis with edger, and propably failing to do so?
rnaseq edger interactions multiple factor design differential gene expression
6.1 years ago • updated 6.0 years ago David R ▴ 90
2
votes
9
replies
1.6k
views
Loads, really loads of DEGs after edgeR differential analysis
rnaseq edger normalization differential gene expression
6.4 years ago David R ▴ 90
4
votes
3
replies
1.2k
views
RNASeq interaction between factors with edgeR when cpms tend to zero
rnaseq edgeR edger main and interaction effects
6.5 years ago David R ▴ 90
2
votes
4
replies
1.2k
views
Removing batch effect on edgeR when interactons are looked at
rnaseq edger statistics model matrix
updated 6.6 years ago by ★ 13k • written 6.6 years ago by ▴ 90
2
votes
6
replies
2.1k
views
Three way-interaction on voom (limma) data, including a factor with > 2 levels
RNASeq limma voom anova
updated 2.2 years ago by ▴ 90 • written 6.8 years ago by ▴ 90
2
votes
5
replies
3.6k
views
How to deal with low-depth RNA-Seq within DESeq2 or edgeR
rnaseq normalization differential gene expression edger deseq2
updated 7.2 years ago by ★ 7.9k • written 7.2 years ago by ▴ 90
0
votes
2
replies
3.8k
views
DESEq2 log2FoldChange and lfcSE calculations
deseq2 log2fc
updated 7.5 years ago by 41k • written 7.5 years ago by ▴ 90
0
votes
2
replies
775
views
GenomicRanges installation problem
DESeq2 GenomicRanges
7.5 years ago David R ▴ 90
1
vote
10
replies
2.1k
views
edgeR: AveLogCPM after estimateGLMCommonDisp
rnaseq edger
updated 7.5 years ago by 50k • written 7.5 years ago by ▴ 90
3
votes
7
replies
4.3k
views
edgeR glmLRT and interaction effect: an example
rna-seq edger glmlrt interactions
updated 8.1 years ago by 50k • written 8.1 years ago by ▴ 90
1
vote
4
replies
3.8k
views
Number of co-variables k in RUVSeq (RUVr)
rnaseq ruvseq RUVr edgeR
8.4 years ago David R ▴ 90
0
votes
9
replies
8.0k
views
DESeq2: NA on padj column when doing bonferroni
updated 10.3 years ago by ▴ 220 • written 10.3 years ago by ▴ 90
0
votes
1
reply
907
views
question edgeR multifactorial design
edgeR
updated 17 months ago by 50k • written 10.3 years ago by ▴ 90
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