Showing : wgcna • reset
0
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2
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162
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voom(calcNormFactors()) for normalization of RNAseq counts for WGCNA
Voom Limma WGCNA
16 days ago Gimena • 0
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2
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205
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WGCNA: analysis of complex trait associations with regressions
Regression WGCNA
22 days ago • updated 17 days ago w.cookson • 0
0
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1
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155
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problem with ClusterRepro function
WGCNA
updated 5 weeks ago by 65k • written 5 weeks ago by • 0
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1
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233
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WGCNA | plotDendroAndColors ERROR
plotDendroAndColor WGCNA
updated 10 weeks ago by ★ 4.0k • written 10 weeks ago by • 0
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2
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471
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Trouble generating a dendrogram with colored gene modules using WGCNA for large RNA-seq experiment
WGCNA
written 4 months ago by • 0
4
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3
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827
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WGCNA documentation not available
WGCNA
written 4 months ago by ▴ 10
1
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2
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640
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Different results from blockwiseModules and blockwiseConsensusModules individual TOM
RNASeqData WGCNA consensusnetworks
4 months ago • updated 3 months ago Levi • 0
0
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2
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297
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WGCNA less samples
RNA-Seq WGCNA Worms
4 months ago davca • 0
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1
reply
471
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WGCNA tutorial docs needed: Horvath Lab site down
WGCNA
updated 5 months ago by ★ 4.0k • written 5 months ago by • 0
1
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1
reply
379
views
How do I select a subset of genes for functional enrichment(GO/KEGG) analysis from WGCNA results?
WGCNA
updated 5 months ago by ▴ 190 • written 5 months ago by ▴ 10
0
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1
reply
372
views
TOMsimilarityFromExpr the returned matrix has NaN values except for diagonal 1
TOMsimilarityFromExpr WGCNA
updated 8 months ago by ★ 4.0k • written 8 months ago by • 0
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1
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1.8k
views
Is it proper to compare two WGCNA matrixes if they were raised to different power (soft threshold)?
Network cluster WGCNA RNASeq
updated 8 months ago by 65k • written 8 months ago by • 0
1
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1
reply
476
views
WGCNA Cluster batch effect
BatchEffect TCGA WGCNA
updated 9 months ago by ★ 4.0k • written 9 months ago by • 0
0
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1
reply
579
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Hub genes selection in WGCNA
wgcna WGCNA hubgene
updated 10 months ago by ★ 4.0k • written 10 months ago by ▴ 20
2
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5
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1.1k
views
DESeq2 remove batch effect
BatchEffect RNASeqData WGCNA DESeq2
updated 2 days ago by • 0 • written 10 months ago by • 0
3
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6
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815
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Question on constructing design matrix and defining contrasts for analysis
wgcna DESeq2 edgeR limma design
updated 10 months ago by 50k • written 10 months ago by ▴ 10
1
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0
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453
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WGCNA of two different cohorts study
DifferentialExpression WGCNA
updated 10 months ago by 41k • written 10 months ago by ▴ 20
2
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1
reply
488
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WGCNA: many over and under-expressed features in modules of a signed network
WGCNA wgcna_package
updated 10 months ago by ▴ 50 • written 11 months ago by ▴ 10
0
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0
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407
views
blockwiseConsensusModules won't save individualTOM data?
blockwiseconsensusModules WGCNA consensus
11 months ago Levi • 0
3
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7
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1.1k
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"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
0
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1
reply
513
views
WGCNA for one perturbation time series (pooled from two independent replicates)?
WGCNA
updated 11 months ago by ★ 4.0k • written 11 months ago by • 0
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0
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529
views
Problems with the input (from TPM) - How to remove isoforms in WGCNA
Arabidopsis_thaliana removeisoforms WGCNA
12 months ago • updated 11 months ago Ortega-C ▴ 10
0
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2
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588
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WGCNA problem
WGCNA
updated 12 months ago by ▴ 10 • written 12 months ago by • 0
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5
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1.6k
views
blockwiseModule crashes in the end and doesn't generate modules
WGCNA
written 12 months ago by • 0
0
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0
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550
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WGCNA approach on multiregional brain transcriptomes
Neurotranscriptome RNAseq WGCNA
12 months ago Levi • 0
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0
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397
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Module Trait Corelation
WGCNA
13 months ago allanokwaro • 0
2
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3
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856
views
Batch correction and Deseq2
DESeq2 WGCNA Normalization NormalyzerDE BatchEffect
updated 13 months ago by ★ 4.0k • written 13 months ago by ▴ 20
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0
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423
views
How to draw module significance barplot?
module_significance barplot WGCNA
14 months ago Sooni ▴ 10
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462
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Multiple way network preservation
wgcna
14 months ago madzayasodara • 0
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0
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514
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WGCNA TOM file empty
WGCNA TOM
14 months ago gianni.drm • 0
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0
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795
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WGCNA Heatmap and Export to Cytoscape Not Working
Cytoscape Heatmap heatmaps WGCNA
14 months ago gianni.drm • 0
0
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1
reply
857
views
WGCNA soft thresholding suggesting a power of 1
independence thresholding WGCNA connectivity scale
updated 7 weeks ago by ▴ 720 • written 14 months ago by • 0
0
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1
reply
506
views
In WGCNA which is the matrix on which the eigen decomposition is run to get the module eigen gene
WGCNA
updated 14 months ago by ▴ 50 • written 14 months ago by • 0
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0
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607
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Does verboseScatterplot in WGCNA package allow for highlighting a subset of genes
WGCNA
15 months ago S • 0
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0
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579
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Problems running WGCNA
WGCNA
16 months ago S • 0
0
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0
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515
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coexpression networks
WGCNA igraph
16 months ago María José • 0
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0
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489
views
A question about GWENA R/Bioconductor package
proteomics GWENA Proteomics WGCNA
16 months ago Abdullah • 0
0
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1
reply
856
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
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0
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723
views
WGCNA: minModuleSize is not responding correctly
wgcna Network WGCNA minModuleSize
17 months ago bioinformaticssrm2011 • 0
2
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1
reply
774
views
WGCNA: weird issue of module with a single gene
network co-expression WGCNA
updated 19 months ago by ▴ 50 • written 19 months ago by ▴ 10
0
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1
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799
views
WGCNA - Network construction and module detection
gene Clustering wgcna flashclust
updated 19 months ago by ▴ 50 • written 20 months ago by ▴ 20
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0
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548
views
MM-GS plot doesn't show any negative correlation
wgcna
21 months ago shubhankar.pawar • 0
0
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1
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929
views
WGCNA Export Eigengene Adjacency/Correlation values export
WGCNA
updated 21 months ago by • 0 • written 21 months ago by • 0
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0
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620
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ARACNe Sample Size
grndata GRN ARACNE WGCNA
21 months ago Harrsha • 0
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0
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508
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Enrichment in genomic regions
Enrichment clusterPro WGCNA
21 months ago María José • 0
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0
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598
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How to create consensus network from SampledBlockwiseModules in WGCNA?
NetworkInference SampledBlockWiseModules WGCNA
21 months ago as8020 • 0
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0
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412
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WGCNA consensusMEDdissimilrity
WGCNA
23 months ago María José • 0
1
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3
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1.7k
views
WGCNA error
WGCNA
23 months ago ayabalbaa1990 • 0
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737
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The gene clusters from the WGCNA dendrogram output are not in order
Clustering WGCNA
23 months ago chiwut.wong • 0
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0
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648
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FILTER GENES FOR WGCNA
WGCNA
24 months ago María José • 0
50 results • Page 1 of 1
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Answer: Cannabis and KEGGgraph by deeenes ▴ 30
Hello, I'm a developer of the `OmnipathR` package, and I wrote [a function][1] to access certain KEGG data: library(OmnipathR) cs…
Answer: RNAseq:Technical replicates from different batches by Gordon Smyth 50k
I am not entirely clear what you mean by "technical" replicates in this case. Are they resequencing of the same RNA samples or are they fre…
Comment: DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, param by russ.bainer ▴ 10
Hi, I'm hitting this too. As far as I can tell my DataTrack is fine, but perhaps I am missing something. Notably the same code works on o…
Comment: The difference when using Limma compare between 3 conditions vs 2 conditions by Chris • 0
Hi Robert, If I don't want to use all pathway in c2 gene set but only a few pathways of interested, how can I do that? So we try to get a …
Comment: How to retrieve detailed regression results from deseq2 by Weiqian ▴ 10
Hi Michael, thanks for the answer! I'll have a look : )
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Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
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