Showing : WGCNA • reset
8
votes
17
replies
15k
views
WGCNA for RNA-Seq Sample Set, Outliers, and Spearman correlation
WGCNA Sample Size Outliers
updated 8.7 years ago by • 0 • written 9.2 years ago by ▴ 150
15
votes
17
replies
23k
views
WGCNA: What is `soft thresholding`?
wgcna network analysis network correlation coexpression
updated 3.5 years ago by ▴ 730 • written 7.7 years ago by ▴ 40
1
vote
12
replies
4.7k
views
WGCNA: correlations module-traits, and module membership-gene significance
WGCNA co-expression analysis gene significance module membership module-trait relationship
updated 23 months ago by ▴ 10 • written 4.7 years ago by ▴ 30
0
votes
10
replies
4.0k
views
WGCNA differences two groups 10 replicates each group
WGCNA
updated 7.8 years ago by ★ 3.0k • written 7.8 years ago by • 0
3
votes
9
replies
2.3k
views
problem for finding soft thresholding in WGCNA algorithm
wgcna abline function Scale independence diagram
5.6 years ago modarzi ▴ 10
4
votes
9
replies
3.3k
views
WGCNA | pickSoftThreshold.fromSimilarity not working for input similarity matrix
WGCNA similarity correlation bioconductor rnaseq
updated 7.3 years ago by ★ 3.0k • written 7.3 years ago by ▴ 40
0
votes
9
replies
3.3k
views
WGCNA module trait relationship issue
wgcna
updated 3.9 years ago by ★ 3.0k • written 3.9 years ago by • 0
2
votes
9
replies
4.0k
views
Deseq2 normalization for WGCNA
RNASeq Deseq2 DESeq2 WGCNA
updated 2.0 years ago by 42k • written 2.4 years ago by ▴ 10
7
votes
9
replies
1.4k
views
Unclear of calculating correlations with case+control samples together
WGCNA wgcna
7.6 years ago mocharrout ▴ 20
7
votes
9
replies
3.7k
views
WGCNA - networking RNA seq gives only one module!
WGCNA R network co-expression
updated 16 months ago by ★ 3.0k • written 5.0 years ago by ▴ 10
1
vote
8
replies
5.0k
views
Error in TOMplot (WGCNA)
WGCNA TOMplot
7.6 years ago Abhishek Singh ▴ 20
6
votes
8
replies
8.4k
views
WGCNA export to cytoscape
wgcna cytoscape
updated 6.4 years ago by ▴ 60 • written 7.0 years ago by ▴ 60
0
votes
8
replies
3.3k
views
WGCNA Soft Thresholding: Why does my y-axis for signed R^2 (R-squared) go above 1 and asymptote at 1.5?
WGCNA Soft Thresholding
updated 4.1 years ago by ★ 3.0k • written 4.1 years ago by • 0
11
votes
8
replies
8.6k
views
Pre-processing of RNA-Seq data for WGCNA and DGE
WGCNA RNA-Seq DESeq2 voom removebatcheffect()
updated 7.7 years ago by ★ 3.0k • written 7.7 years ago by ▴ 70
5
votes
8
replies
4.5k
views
WGCNA tutorial II
WGCNA female and male datasets
updated 2.2 years ago by • 0 • written 4.1 years ago by ▴ 60
5
votes
8
replies
3.9k
views
Problem about picking soft threshold power in WGCNA software
wgcna rnaseq
written 7.2 years ago by ▴ 40
1
vote
8
replies
4.4k
views
WGCNA error : Error in hclust
WGCNA
updated 7.3 years ago by ★ 3.0k • written 7.4 years ago by ▴ 10
9
votes
7
replies
4.2k
views
WGCNA: relate modules to binary trait
WGCNA module eigengene binary trait R
updated 5.4 years ago by ▴ 30 • written 5.4 years ago by ▴ 50
3
votes
7
replies
2.4k
views
novice: building gene co-expression network using RNA-Seq data
rna-seq WGCNA deseq method coexpression
updated 6.1 years ago by ★ 3.0k • written 6.1 years ago by ▴ 10
2
votes
7
replies
4.6k
views
How to create "trait data" file for WGCNA
wgcna coexpression correlation microarray
updated 8.2 years ago by ★ 3.0k • written 8.3 years ago by ▴ 20
3
votes
7
replies
1.2k
views
"Degree values are the same for all nodes in a network imported from WGCNA to Cytoscape using RCy3. Seeking insights and potential causes."
Cytoscape RCy3 Networkvisualization WGCNA
12 months ago Ortega-C ▴ 10
2
votes
7
replies
3.1k
views
WGCNA: Topological Overlap Matrix (TOM) Values Greater Than 1
WGCNA
3.6 years ago teresisc ▴ 10
5
votes
7
replies
2.8k
views
problem for Using RNA-seq data-set in WGCNA
WGCNA RNA-seq
updated 5.9 years ago by ★ 3.0k • written 5.9 years ago by ▴ 10
4
votes
6
replies
1.1k
views
WGCNA: consensusTOM() doesn't save TOMs & returns setNames error (but sets are named)
WGCNA
updated 5.2 years ago by ★ 3.0k • written 5.2 years ago by ▴ 20
0
votes
6
replies
1.3k
views
RNseq data for WGCNA
WGCNA
updated 6.7 years ago by ★ 3.0k • written 6.7 years ago by ▴ 50
1
vote
6
replies
2.4k
views
WGCNA with distance matrix only from newick data.
WGCNA eigengene hub genes
6.5 years ago yifangt ▴ 20
2
votes
6
replies
4.7k
views
Error running TOMplot in WGCNA package
wgcna network
updated 9.6 years ago by ▴ 180 • written 9.6 years ago by ▴ 250
0
votes
6
replies
5.0k
views
WGCNA network creation error
WGCNA
updated 2.3 years ago by ★ 3.0k • written 8.8 years ago by ▴ 30
4
votes
6
replies
5.5k
views
WGCNA automatic vs manual network creation
WGCNA
updated 8.6 years ago by ★ 3.0k • written 8.6 years ago by ▴ 30
3
votes
6
replies
4.6k
views
WGCNA gene significance and module membership
WGCNA R
updated 18 months ago by ★ 3.0k • written 4.5 years ago by • 0
0
votes
6
replies
1.4k
views
Overlapping genes between gene modules in WGCNA
WGCNA
4.3 years ago shresthavivek18 • 0
0
votes
6
replies
2.4k
views
WGCNA exporting for Visant visualization
wgcna visant
updated 7.1 years ago by ★ 3.0k • written 7.1 years ago by • 0
5
votes
6
replies
6.7k
views
WGCNA - module membership via max kME?
wgcna modules
updated 6.5 years ago by ★ 3.0k • written 6.6 years ago by ▴ 10
8
votes
6
replies
4.5k
views
Subset WGCNA results for export to Cytoscape
wgcna
updated 4.6 years ago by ★ 3.0k • written 4.6 years ago by ▴ 160
0
votes
6
replies
1.7k
views
Breaking down the output from plotEigengeneNetworks()
WGCNA Heatmap EigenGeneNetworks
4.6 years ago l.s.wijaya • 0
3
votes
6
replies
860
views
Question on constructing design matrix and defining contrasts for analysis
wgcna DESeq2 edgeR limma design
updated 11 months ago by 50k • written 11 months ago by ▴ 10
2
votes
6
replies
1.9k
views
RNA-Seq normalization for co-expression analysis
edger WGCNA limma
updated 4.8 years ago by 50k • written 4.8 years ago by ▴ 50
3
votes
6
replies
2.7k
views
WGCNA normalized CDF to use, WGCNA Intramodular connectivity
wgcna affymetrix microarrays affy
updated 8.8 years ago by ★ 3.0k • written 9.0 years ago by ▴ 30
6
votes
6
replies
2.7k
views
WGCNA coupled with differential expression analysis: question about baseline module detection
wgcna WGCNA
written 4.1 years ago by ▴ 60
3
votes
6
replies
1.4k
views
Questions on Pigengene
Pigengene WGCNA
updated 6.2 years ago by ▴ 200 • written 6.2 years ago by • 0
2
votes
5
replies
5.3k
views
Can I use the WGCNA dendrogram to display a heatmap of gene expression?
wgcna heatmap desq2 clustering
updated 9.0 years ago by ★ 1.5k • written 9.0 years ago by ▴ 250
1
vote
5
replies
3.3k
views
adjacency function of WGCNA
wgcna
7.7 years ago wlnjseu • 0
11
votes
5
replies
3.2k
views
WGCNA with paired samples
wgcna paired samples exercise
updated 7.7 years ago by ★ 3.0k • written 7.7 years ago by ▴ 60
3
votes
5
replies
1.3k
views
Samples replications in WGCNA?
WGCNA
updated 4.1 years ago by ★ 3.9k • written 4.1 years ago by ▴ 60
4
votes
5
replies
2.2k
views
WGCNA network visualisation in RCyjs
WGCNA rcytoscape network analysis
updated 7.9 years ago by ▴ 470 • written 8.0 years ago by ▴ 20
11
votes
5
replies
7.4k
views
Theoretical WGCNA Question
WGCNA Theory Scale-Free Topology
updated 29 days ago by • 0 • written 9.2 years ago by ▴ 150
0
votes
5
replies
1.4k
views
WGCNA Co-expression network analysis on cuffdiff output
WGCNA cuffdiff
5.7 years ago sbbinfo90 • 0
1
vote
5
replies
4.1k
views
WGCNA - How to prevent "blockwiseModules" command from dividing genes into multiple blocks?
WGCNA RNA-Seq
updated 7.6 years ago by ★ 3.0k • written 7.6 years ago by ▴ 70
1
vote
5
replies
1.3k
views
Error in sizeRestrictedClusterMerge: replace is not a multiple of replacement length
wgcna
updated 5.0 years ago by ★ 3.0k • written 5.0 years ago by ▴ 730
3
votes
5
replies
7.4k
views
WGCNA HELP - Error: REAL() can only be applied to a 'numeric', not a 'integer'
wgcna rnaseq R bioconductor
updated 8.4 years ago by ★ 3.0k • written 8.4 years ago by ▴ 30
50 results • Page 1 of 1
Recent ...
Replies
Comment: DESeq2- Mysterious interaction suppresses DEGs by shaunpeterson • 0
The images I tried to attach didn't attach. Here is the PCA (MDS) of all the samples, with the Cortex outlier highlighed. ![enter image de…
Comment: STRINGdb : error with string_db$plot_network() by damian.szk ▴ 80
ok. Forcing non-secure protocol should not be needed anymore, due to changes in the underlying library. However, I will look at why "HTTP" …
Comment: STRINGdb : error with string_db$plot_network() by ninidea • 0
> Does the vignette produce the same error? No. Anyway, I finally solved the problem. I don't know why, but I removed: protocol='http' fr…
Comment: maSigPro genes from clusters by anne-laure • 0
Hello It is a litlle bit late but I do not get how to extract the genes from each cluster identified by see.genes(sigs$sig.genes$Day4vs…
Comment: STRINGdb : error with string_db$plot_network() by damian.szk ▴ 80
Your code seems ok. Does the vignette produce the same error? [link to STRINGdb R script vignette][1] [1]: https://www.bioconductor.or…
Votes
Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
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