Showing : wgcna • reset
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WGNCA kME vs. kIM
WGCNA
updated 7 days ago by • 0 • written 8.7 years ago by ▴ 30
0
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0
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74
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query regarding how to apply WGCNA on replicates
replicatesRNAseq WGCNA
14 days ago k200987 • 0
0
votes
2
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983
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using WGCNA, positive or negative corrlation between genes composing modules.
correlation wgcna network
updated 14 days ago by • 0 • written 18 months ago by • 0
11
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5
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7.5k
views
Theoretical WGCNA Question
WGCNA Theory Scale-Free Topology
updated 5 weeks ago by • 0 • written 9.2 years ago by ▴ 150
2
votes
5
replies
1.2k
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DESeq2 remove batch effect
BatchEffect RNASeqData WGCNA DESeq2
updated 6 weeks ago by • 0 • written 11 months ago by • 0
0
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5
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1.8k
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blockwiseModule crashes in the end and doesn't generate modules
WGCNA
written 13 months ago by • 0
0
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2
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213
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voom(calcNormFactors()) for normalization of RNAseq counts for WGCNA
Voom Limma WGCNA
8 weeks ago Gimena • 0
0
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2
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254
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WGCNA: analysis of complex trait associations with regressions
Regression WGCNA
8 weeks ago w.cookson • 0
0
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1
reply
196
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problem with ClusterRepro function
WGCNA
updated 10 weeks ago by 66k • written 10 weeks ago by • 0
0
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1
reply
912
views
WGCNA soft thresholding suggesting a power of 1
independence thresholding WGCNA connectivity scale
updated 12 weeks ago by ▴ 720 • written 15 months ago by • 0
0
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1
reply
342
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WGCNA | plotDendroAndColors ERROR
plotDendroAndColor WGCNA
updated 3 months ago by ★ 4.2k • written 3 months ago by • 0
0
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1
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1.1k
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WGCNA Preservation error
preservation WGCNA
updated 4 months ago by • 0 • written 2.4 years ago by • 0
0
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2
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836
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Finding Modules with WGCNA - Collapsing Biological Replicates in Expression Data - Then Finding Eigengenes on Previously Found Modules
WGCNA Module Detection
updated 4 months ago by • 0 • written 4.6 years ago by • 0
1
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2
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720
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Different results from blockwiseModules and blockwiseConsensusModules individual TOM
RNASeqData WGCNA consensusnetworks
6 months ago • updated 5 months ago Levi • 0
0
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2
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573
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Trouble generating a dendrogram with colored gene modules using WGCNA for large RNA-seq experiment
WGCNA
written 5 months ago by • 0
5
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8
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4.0k
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Problem about picking soft threshold power in WGCNA software
wgcna rnaseq
written 7.2 years ago by ▴ 40
0
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2
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1.4k
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WGCNA: Picking soft threshold before and after batch effect correction for Microbial data
wgcna WGCNA
written 2.2 years ago by • 0
4
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3
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1.1k
views
WGCNA documentation not available
WGCNA
written 5 months ago by ▴ 10
0
votes
1
reply
1.0k
views
WGCNA correlation sign differences between eigen genes/ hub genes and clinical traits
hub correlation eigen WGCNA
updated 5 months ago by • 0 • written 2.5 years ago by • 0
0
votes
2
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337
views
WGCNA less samples
RNA-Seq WGCNA Worms
6 months ago davca • 0
0
votes
1
reply
542
views
WGCNA tutorial docs needed: Horvath Lab site down
WGCNA
updated 6 months ago by ★ 4.2k • written 6 months ago by • 0
1
vote
1
reply
436
views
How do I select a subset of genes for functional enrichment(GO/KEGG) analysis from WGCNA results?
WGCNA
updated 7 months ago by ▴ 190 • written 7 months ago by ▴ 10
0
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1
reply
413
views
TOMsimilarityFromExpr the returned matrix has NaN values except for diagonal 1
TOMsimilarityFromExpr WGCNA
updated 9 months ago by ★ 4.2k • written 9 months ago by • 0
0
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1
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2.2k
views
Is it proper to compare two WGCNA matrixes if they were raised to different power (soft threshold)?
Network cluster WGCNA RNASeq
updated 10 months ago by 66k • written 10 months ago by • 0
6
votes
6
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2.8k
views
WGCNA coupled with differential expression analysis: question about baseline module detection
wgcna WGCNA
written 4.1 years ago by ▴ 60
1
vote
1
reply
514
views
WGCNA Cluster batch effect
BatchEffect TCGA WGCNA
updated 11 months ago by ★ 4.2k • written 11 months ago by • 0
0
votes
1
reply
656
views
Hub genes selection in WGCNA
wgcna WGCNA hubgene
updated 11 months ago by ★ 4.2k • written 11 months ago by ▴ 20
1
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0
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507
views
WGCNA of two different cohorts study
DifferentialExpression WGCNA
updated 12 months ago by 42k • written 12 months ago by ▴ 20
3
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6
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870
views
Question on constructing design matrix and defining contrasts for analysis
wgcna DESeq2 edgeR limma design
updated 12 months ago by 50k • written 12 months ago by ▴ 10
2
votes
1
reply
538
views
WGCNA: many over and under-expressed features in modules of a signed network
WGCNA wgcna_package
updated 12 months ago by ▴ 50 • written 12 months ago by ▴ 10
0
votes
0
replies
447
views
blockwiseConsensusModules won't save individualTOM data?
blockwiseconsensusModules WGCNA consensus
12 months ago Levi • 0
3
votes
7
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1.3k
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
0
votes
1
reply
539
views
WGCNA for one perturbation time series (pooled from two independent replicates)?
WGCNA
updated 13 months ago by ★ 4.2k • written 13 months ago by • 0
0
votes
0
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567
views
Problems with the input (from TPM) - How to remove isoforms in WGCNA
Arabidopsis_thaliana removeisoforms WGCNA
13 months ago Ortega-C ▴ 10
0
votes
2
replies
627
views
WGCNA problem
WGCNA
updated 13 months ago by ▴ 10 • written 13 months ago by • 0
0
votes
0
replies
585
views
WGCNA approach on multiregional brain transcriptomes
Neurotranscriptome RNAseq WGCNA
13 months ago Levi • 0
0
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4
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4.0k
views
WGCNA grey module
WGCNA
updated 14 months ago by ▴ 10 • written 6.0 years ago by ▴ 10
2
votes
3
replies
950
views
Batch correction and Deseq2
DESeq2 WGCNA Normalization NormalyzerDE BatchEffect
updated 14 months ago by ★ 4.2k • written 14 months ago by ▴ 20
0
votes
0
replies
458
views
Module Trait Corelation
WGCNA
14 months ago allanokwaro • 0
0
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2
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2.0k
views
WGCNA adjust p value
WGCNA
written 2.8 years ago by ▴ 40
0
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0
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468
views
How to draw module significance barplot?
module_significance barplot WGCNA
15 months ago Sooni ▴ 10
0
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0
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495
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Multiple way network preservation
wgcna
15 months ago madzayasodara • 0
0
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0
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550
views
WGCNA TOM file empty
WGCNA TOM
15 months ago gianni.drm • 0
0
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0
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869
views
WGCNA Heatmap and Export to Cytoscape Not Working
Cytoscape Heatmap heatmaps WGCNA
15 months ago gianni.drm • 0
0
votes
1
reply
543
views
In WGCNA which is the matrix on which the eigen decomposition is run to get the module eigen gene
WGCNA
updated 16 months ago by ▴ 50 • written 16 months ago by • 0
0
votes
0
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638
views
Does verboseScatterplot in WGCNA package allow for highlighting a subset of genes
WGCNA
16 months ago S • 0
7
votes
9
replies
3.8k
views
WGCNA - networking RNA seq gives only one module!
WGCNA R network co-expression
updated 16 months ago by ★ 3.0k • written 5.1 years ago by ▴ 10
0
votes
4
replies
1.6k
views
WGCNA soft threshold with methylation data but no scale-free topology
methylation EPIC scale-free topology WGCNA
updated 16 months ago by • 0 • written 4.8 years ago by • 0
0
votes
1
reply
996
views
Trouble with gene dendrogram
Network RNASeq WGCNA
updated 16 months ago by • 0 • written 2.5 years ago by ▴ 10
0
votes
0
replies
640
views
Problems running WGCNA
WGCNA
17 months ago S • 0
50 results • Page 1 of 1
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Comment: How to run allelic imbalance in apeglm by parayod376 • 0
Which I care about. [Papa's games][1] thank you for sharing the information. [1]: https://papasgamesfree.github.io
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FYI, I emailed Benilton and he says he's working on a fix, so stay tuned!
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If you have functions in another R document, you have to `source` that document to load the functions into your workspace. Just like you wo…
Comment: Using featureCounts with SAF annotation file gives "Error: only GTF files contai by atan • 0
Thank you! I ended up running it with a gtf on command line, partially because I couldn't figure out how to list multiple files in R for in…
Comment: Using featureCounts with SAF annotation file gives "Error: only GTF files contai by atan • 0
For some reason, that's still not working for me on command line. I ended up figuring out another way around, though, by converting the g…
Votes
Reduce the number of nodes appear in the cnetplot of clusterprofiler
A: DESeq2: add annotations (from data frame) to DESeqDataSet
Answer: Error in gseDO function
Comment: what the test method for enrichGO in clusterProfiler?
A: Comparison between two different group's pathway analysis results
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