Showing : wgcna • reset
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voom(calcNormFactors()) for normalization of RNAseq counts for WGCNA
Voom Limma WGCNA
4 weeks ago • updated 29 days ago Gimena • 0
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2
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228
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WGCNA: analysis of complex trait associations with regressions
Regression WGCNA
5 weeks ago • updated 4 weeks ago w.cookson • 0
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1
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168
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problem with ClusterRepro function
WGCNA
updated 7 weeks ago by 65k • written 7 weeks ago by • 0
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1
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267
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WGCNA | plotDendroAndColors ERROR
plotDendroAndColor WGCNA
updated 12 weeks ago by ★ 4.1k • written 12 weeks ago by • 0
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2
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514
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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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919
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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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665
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Different results from blockwiseModules and blockwiseConsensusModules individual TOM
RNASeqData WGCNA consensusnetworks
5 months ago • updated 4 months ago Levi • 0
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2
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312
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WGCNA less samples
RNA-Seq WGCNA Worms
5 months ago davca • 0
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1
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495
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WGCNA tutorial docs needed: Horvath Lab site down
WGCNA
updated 5 months ago by ★ 4.1k • written 5 months ago by • 0
1
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1
reply
402
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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
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1
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387
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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
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1
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2.0k
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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
1
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1
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495
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WGCNA Cluster batch effect
BatchEffect TCGA WGCNA
updated 10 months ago by ★ 4.1k • written 10 months ago by • 0
0
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1
reply
607
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Hub genes selection in WGCNA
wgcna WGCNA hubgene
updated 10 months ago by ★ 4.1k • written 10 months ago by ▴ 20
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5
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1.1k
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DESeq2 remove batch effect
BatchEffect RNASeqData WGCNA DESeq2
updated 16 days ago by • 0 • written 10 months ago by • 0
3
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6
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840
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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
1
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0
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470
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WGCNA of two different cohorts study
DifferentialExpression WGCNA
updated 11 months ago by 41k • written 11 months ago by ▴ 20
2
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1
reply
507
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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
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0
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427
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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1.2k
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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
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1
reply
522
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WGCNA for one perturbation time series (pooled from two independent replicates)?
WGCNA
updated 12 months ago by ★ 4.1k • written 12 months ago by • 0
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0
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547
views
Problems with the input (from TPM) - How to remove isoforms in WGCNA
Arabidopsis_thaliana removeisoforms WGCNA
12 months ago Ortega-C ▴ 10
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2
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606
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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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1.7k
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blockwiseModule crashes in the end and doesn't generate modules
WGCNA
written 12 months ago by • 0
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0
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565
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WGCNA approach on multiregional brain transcriptomes
Neurotranscriptome RNAseq WGCNA
13 months ago Levi • 0
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0
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419
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Module Trait Corelation
WGCNA
13 months ago allanokwaro • 0
2
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3
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892
views
Batch correction and Deseq2
DESeq2 WGCNA Normalization NormalyzerDE BatchEffect
updated 13 months ago by ★ 4.1k • written 13 months ago by ▴ 20
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0
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440
views
How to draw module significance barplot?
module_significance barplot WGCNA
14 months ago Sooni ▴ 10
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485
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Multiple way network preservation
wgcna
14 months ago madzayasodara • 0
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530
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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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815
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WGCNA Heatmap and Export to Cytoscape Not Working
Cytoscape Heatmap heatmaps WGCNA
15 months ago gianni.drm • 0
0
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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
0
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1
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528
views
In WGCNA which is the matrix on which the eigen decomposition is run to get the module eigen gene
WGCNA
updated 15 months ago by ▴ 50 • written 15 months ago by • 0
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0
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621
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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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600
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Problems running WGCNA
WGCNA
16 months ago S • 0
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0
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528
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coexpression networks
WGCNA igraph
17 months ago María José • 0
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0
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505
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A question about GWENA R/Bioconductor package
proteomics GWENA Proteomics WGCNA
17 months ago Abdullah • 0
0
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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
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0
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755
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WGCNA: minModuleSize is not responding correctly
wgcna Network WGCNA minModuleSize
17 months ago bioinformaticssrm2011 • 0
2
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1
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793
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
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1
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824
views
WGCNA - Network construction and module detection
gene Clustering wgcna flashclust
updated 20 months ago by ▴ 50 • written 20 months ago by ▴ 20
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0
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560
views
MM-GS plot doesn't show any negative correlation
wgcna
21 months ago shubhankar.pawar • 0
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1
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960
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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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633
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ARACNe Sample Size
grndata GRN ARACNE WGCNA
22 months ago Harrsha • 0
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521
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Enrichment in genomic regions
Enrichment clusterPro WGCNA
22 months ago María José • 0
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0
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612
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How to create consensus network from SampledBlockwiseModules in WGCNA?
NetworkInference SampledBlockWiseModules WGCNA
22 months ago as8020 • 0
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0
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420
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WGCNA consensusMEDdissimilrity
WGCNA
24 months ago María José • 0
1
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3
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1.8k
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WGCNA error
WGCNA
24 months ago ayabalbaa1990 • 0
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759
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The gene clusters from the WGCNA dendrogram output are not in order
Clustering WGCNA
2.0 years ago chiwut.wong • 0
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0
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657
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FILTER GENES FOR WGCNA
WGCNA
2.0 years ago María José • 0
50 results • Page 1 of 1
Recent ...
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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…
Answer: Gene-by-sample covariates in limma by Gordon Smyth 50k
Your first method would be valid if, instead of taking ratios, you instead used the differences between the log-transformed 13C and 12C int…
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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