Showing : wgcna • reset
11
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5
replies
7.4k
views
Theoretical WGCNA Question
WGCNA Theory Scale-Free Topology
updated 14 days ago by • 0 • written 9.1 years ago by ▴ 150
6
votes
6
replies
2.7k
views
WGCNA coupled with differential expression analysis: question about baseline module detection
wgcna WGCNA
written 4.0 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
4
votes
3
replies
919
views
WGCNA documentation not available
WGCNA
written 4 months ago by ▴ 10
3
votes
6
replies
840
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
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
11 months ago Ortega-C ▴ 10
2
votes
5
replies
1.1k
views
DESeq2 remove batch effect
BatchEffect RNASeqData WGCNA DESeq2
updated 16 days ago by • 0 • written 10 months ago by • 0
2
votes
1
reply
507
views
WGCNA: many over and under-expressed features in modules of a signed network
WGCNA wgcna_package
updated 11 months ago by ▴ 50 • written 11 months ago by ▴ 10
1
vote
1
reply
495
views
WGCNA Cluster batch effect
BatchEffect TCGA WGCNA
updated 10 months ago by ★ 4.1k • written 10 months ago by • 0
1
vote
2
replies
2.7k
views
WGNCA kME vs. kIM
WGCNA
updated 11 months ago by • 0 • written 8.6 years ago by ▴ 30
1
vote
1
reply
402
views
How do I select a subset of genes for functional enrichment(GO/KEGG) analysis from WGCNA results?
WGCNA
updated 6 months ago by ▴ 190 • written 6 months ago by ▴ 10
1
vote
0
replies
470
views
WGCNA of two different cohorts study
DifferentialExpression WGCNA
updated 11 months ago by 41k • written 11 months ago by ▴ 20
1
vote
2
replies
665
views
Different results from blockwiseModules and blockwiseConsensusModules individual TOM
RNASeqData WGCNA consensusnetworks
5 months ago • updated 4 months ago Levi • 0
0
votes
1
reply
267
views
WGCNA | plotDendroAndColors ERROR
plotDendroAndColor WGCNA
updated 12 weeks ago by ★ 4.1k • written 12 weeks ago by • 0
0
votes
0
replies
427
views
blockwiseConsensusModules won't save individualTOM data?
blockwiseconsensusModules WGCNA consensus
11 months ago Levi • 0
0
votes
1
reply
387
views
TOMsimilarityFromExpr the returned matrix has NaN values except for diagonal 1
TOMsimilarityFromExpr WGCNA
updated 8 months ago by ★ 4.1k • written 8 months ago by • 0
0
votes
1
reply
168
views
problem with ClusterRepro function
WGCNA
updated 7 weeks ago by 65k • written 7 weeks ago by • 0
0
votes
2
replies
514
views
Trouble generating a dendrogram with colored gene modules using WGCNA for large RNA-seq experiment
WGCNA
written 4 months ago by • 0
0
votes
2
replies
184
views
voom(calcNormFactors()) for normalization of RNAseq counts for WGCNA
Voom Limma WGCNA
4 weeks ago • updated 29 days ago Gimena • 0
0
votes
2
replies
806
views
Finding Modules with WGCNA - Collapsing Biological Replicates in Expression Data - Then Finding Eigengenes on Previously Found Modules
WGCNA Module Detection
updated 3 months ago by • 0 • written 4.5 years ago by • 0
0
votes
5
replies
1.7k
views
blockwiseModule crashes in the end and doesn't generate modules
WGCNA
written 12 months ago by • 0
0
votes
1
reply
495
views
WGCNA tutorial docs needed: Horvath Lab site down
WGCNA
updated 5 months ago by ★ 4.1k • written 5 months ago by • 0
0
votes
2
replies
1.3k
views
WGCNA: Picking soft threshold before and after batch effect correction for Microbial data
wgcna WGCNA
written 2.1 years ago by • 0
0
votes
1
reply
1.1k
views
WGCNA Preservation error
preservation WGCNA
updated 3 months ago by • 0 • written 2.3 years ago by • 0
0
votes
1
reply
996
views
WGCNA correlation sign differences between eigen genes/ hub genes and clinical traits
hub correlation eigen WGCNA
updated 5 months ago by • 0 • written 2.4 years ago by • 0
0
votes
1
reply
2.0k
views
Is it proper to compare two WGCNA matrixes if they were raised to different power (soft threshold)?
Network cluster WGCNA RNASeq
updated 9 months ago by 65k • written 9 months ago by • 0
0
votes
1
reply
607
views
Hub genes selection in WGCNA
wgcna WGCNA hubgene
updated 10 months ago by ★ 4.1k • written 10 months ago by ▴ 20
0
votes
2
replies
312
views
WGCNA less samples
RNA-Seq WGCNA Worms
5 months ago davca • 0
0
votes
2
replies
228
views
WGCNA: analysis of complex trait associations with regressions
Regression WGCNA
5 weeks ago • updated 4 weeks ago w.cookson • 0
0
votes
1
reply
894
views
using WGCNA, positive or negative corrlation between genes composing modules.
correlation wgcna network
updated 4 months ago by • 0 • written 17 months ago by • 0
0
votes
1
reply
879
views
WGCNA soft thresholding suggesting a power of 1
independence thresholding WGCNA connectivity scale
updated 9 weeks ago by ▴ 720 • written 15 months ago by • 0
31 results • Page 1 of 1
Recent ...
Replies
Comment: Once again a "Model matrix not full rank" by James W. MacDonald 65k
You already ran a temporal assay. Now you can compare each time point to the baseline. The interaction term is only applicable if you have…
Comment: Timecourse RNASeq analysis by Aurora • 0
I managed to run ImpulseDE2 as I am interested in getting significant gene changes over time. Now I would like to run deseq as well and com…
Comment: Once again a "Model matrix not full rank" by arfranco ▴ 130
But.. How to run a temporal assay?
Comment: Deseq2 and Normalization of RNA sequencing data by kcarey • 0
Noise in terms of expression...to make sure that the information reported is not due to artifacts and actually expression. When I had FPKM …
Answer: NEED FOR NESSASORY HELP by Gordon Smyth 50k
Is this quesion related to your earlier question? https://support.bioconductor.org/p/9157127/ If you've already done an edgeR analysis, yo…
Votes
Bioconductor 3.19 is Released!
A: Error in DESeqDataSet : some values in assay are not integers
Bioconductor 3.19 is Released!
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
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