Showing : WGCNA • reset
2
votes
7
replies
5.7k
views
How to create "trait data" file for WGCNA
wgcna coexpression correlation microarray
updated 9.7 years ago by ★ 3.0k • written 9.8 years ago by ▴ 20
1
vote
2
replies
5.5k
views
WGCNA distance measures, clustering with TOM based on adjacency matrix type = "distance" versus correlation
wgcna microarray clustering
updated 9.7 years ago by ★ 3.0k • written 9.7 years ago by • 0
0
votes
2
replies
6.0k
views
WGCNA - problems picking a suitable power
WGCNA pickSoftThreshold power RNA-Seq
updated 9.7 years ago by ★ 3.0k • written 9.8 years ago by ▴ 10
1
vote
0
replies
1.8k
views
Trouble pickSoftThreshold() large dataset WGCNA
r wgcna
9.8 years ago sventhedestroyer ▴ 10
5
votes
1
reply
2.3k
views
WGCNA - looking for over-representation of DEGs within gene networks
wgcna r differential gene expression bioconductor
updated 9.8 years ago by ★ 3.0k • written 9.8 years ago by ▴ 30
0
votes
2
replies
3.3k
views
WGCNA - Using real data for tutorial III
pathways wgcna network rna-seq
9.8 years ago hywel.williams • 0
3
votes
5
replies
8.6k
views
WGCNA HELP - Error: REAL() can only be applied to a 'numeric', not a 'integer'
wgcna rnaseq R bioconductor
updated 9.8 years ago by ★ 3.0k • written 9.8 years ago by ▴ 30
0
votes
1
reply
3.2k
views
WGCNA data format?
WGCNA coexpression microarray
updated 9.9 years ago by ★ 3.0k • written 9.9 years ago by • 0
4
votes
2
replies
4.0k
views
WGCNA: Relating Modules to Categorical External Traits
WGCNA BetweenGroupComparison
10.0 years ago mjc5038 ▴ 30
1
vote
2
replies
2.4k
views
problem with WGCNA script: dissTOM
wgcna
updated 10.0 years ago by ★ 3.0k • written 10.0 years ago by • 0
4
votes
6
replies
6.5k
views
WGCNA automatic vs manual network creation
WGCNA
updated 10.1 years ago by ★ 3.0k • written 10.1 years ago by ▴ 30
2
votes
3
replies
5.9k
views
WGCNA "bicor" correlation
wgcna bicor WGCNA
10.1 years ago bcbio_uk ▴ 10
0
votes
0
replies
1.2k
views
How many probesets/genes can WGCNA handle?
wgcna
10.1 years ago mahes.muniandy • 0
8
votes
17
replies
17k
views
WGCNA for RNA-Seq Sample Set, Outliers, and Spearman correlation
WGCNA Sample Size Outliers
updated 10.2 years ago by • 0 • written 10.7 years ago by ▴ 150
0
votes
6
replies
6.0k
views
WGCNA network creation error
WGCNA
updated 3.8 years ago by ★ 3.0k • written 10.3 years ago by ▴ 30
13
votes
1
reply
5.9k
views
WGCNA - Compare module preservation between class
WGCNA coexpression
updated 10.3 years ago by ★ 3.0k • written 10.3 years ago by ▴ 60
0
votes
0
replies
1.5k
views
WGCNA soft connectivity vs intramodular connectivity
WGCNA
10.3 years ago akridgerunner ▴ 30
1
vote
1
reply
1.6k
views
WGNCA colors for bar plots
WGCNA
updated 10.3 years ago by ★ 3.0k • written 10.3 years ago by ▴ 30
3
votes
6
replies
3.5k
views
WGCNA normalized CDF to use, WGCNA Intramodular connectivity
wgcna affymetrix microarrays affy
updated 10.3 years ago by ★ 3.0k • written 10.5 years ago by ▴ 30
14
votes
4
replies
17k
views
WGCNA Hub Gene Selection Method
WGCNA Hub Genes KmE Intramodular Connectivity
updated 10.3 years ago by ★ 3.0k • written 10.3 years ago by ▴ 150
2
votes
3
replies
3.3k
views
WGCNA cytoscape export question
WGCNA
updated 10.3 years ago by ★ 3.0k • written 10.3 years ago by ▴ 30
0
votes
1
reply
2.9k
views
WGCNA corrupt TOM fails to export to Cytoscape
wgcna
updated 10.4 years ago by ★ 3.0k • written 10.4 years ago by ▴ 30
4
votes
5
replies
7.4k
views
WGCNA Tutorial Selection
wgcna coexpression
updated 10.4 years ago by ★ 8.2k • written 10.4 years ago by ▴ 10
2
votes
3
replies
3.3k
views
WGCNA Cohort Question
wgcna
updated 10.5 years ago by ★ 3.0k • written 10.5 years ago by ▴ 30
0
votes
1
reply
1.5k
views
WGCNA package with monozygotic twin data
wgcna Twin Analysis within-pair analysis paired
updated 10.5 years ago by ★ 3.0k • written 10.5 years ago by • 0
2
votes
5
replies
6.1k
views
Can I use the WGCNA dendrogram to display a heatmap of gene expression?
wgcna heatmap desq2 clustering
updated 10.5 years ago by ★ 1.6k • written 10.5 years ago by ▴ 270
0
votes
4
replies
3.0k
views
some wgcna issues
wgcna
10.6 years ago zhouxiuqing • 0
12
votes
5
replies
9.0k
views
Theoretical WGCNA Question
WGCNA Theory Scale-Free Topology
updated 19 months ago by • 0 • written 10.6 years ago by ▴ 150
1
vote
1
reply
4.3k
views
WGCNA - signedKME function
WGCNA RNA-seq signedKME
updated 10.9 years ago by ★ 3.0k • written 10.9 years ago by ▴ 10
3
votes
1
reply
3.5k
views
WGCNA: single channel microarray, one categorical covariate, how to apply it?
wgcna twochannel onechannel
updated 11.0 years ago by ★ 3.0k • written 11.0 years ago by ▴ 20
1
vote
2
replies
4.8k
views
Rearrange dendrogram to match merged modules in WGCNA?
wgcna dendrogram network hclust
updated 11.1 years ago by ▴ 180 • written 11.1 years ago by ▴ 270
0
votes
1
reply
4.3k
views
Plotting an hclust sub-tree in WGCNA?
wgcna hclust plotdendroandcolors dendrogram
updated 11.1 years ago by 68k • written 11.1 years ago by ▴ 180
2
votes
6
replies
5.7k
views
Error running TOMplot in WGCNA package
wgcna network
updated 11.1 years ago by ▴ 180 • written 11.1 years ago by ▴ 270
4
votes
2
replies
4.4k
views
Selecting genes based on expressional variance
geneexpression wgcna rnaseq
updated 11.1 years ago by 1.6k • written 11.1 years ago by ▴ 270
8
votes
4
replies
8.2k
views
WGCNA: overlapping colors in plotDendroAndColors?
wgcna plotDendroAndColors Network
updated 11.2 years ago by ★ 3.0k • written 11.2 years ago by ▴ 180
335 results • Page 7 of 7
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Comment: Getting a large intercept with DESeq2 by Michael Love 43k
Thanks James -- Denise you can check the "note on factor levels" in the vignette. And I'd recommend `plotCounts()` for looking at individu…
Comment: Getting a large intercept with DESeq2 by James W. MacDonald 68k
As a trivial example, consider this: ``` > model.matrix(~Treatment, data.frame(Treatment = factor(rep(1:3, each = 4)))) (Intercept) Tre…
Answer: Getting a large intercept with DESeq2 by James W. MacDonald 68k
The default parameterization in R is a treatment-contrasts parameterization that sets one of your groups as the baseline. So the intercept …
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There is no "MUST", but pseudobulk aggregation is beneficial to a) enable use of tested and robust methods such as limma (though it could u…
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Answer: What R/Bioconductor tools would you recommend for the analysis of sncRNA, specif
Using edgeR or DESeq2 to analyze allele-specific expression?
Answer: DESeq2 design for haplotype MPRA
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Failure to download resources (MeSHDb) from AnnotationHub
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