Showing : WGCNA • reset
0
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blockwiseModule crashes in the end and doesn't generate modules
WGCNA
written 2.9 years ago by • 0
0
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2
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343
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wgcna module preseravtion taking too long?
WGCNA
written 10 weeks ago by • 0
1
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2
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441
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Can limma be used with module eigengenes instead of genes?
limma WGCNA GSVA
written 6 months ago by ▴ 20
0
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4
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875
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Issue with Soft-Thresholding in WGCNA
WGCNA
written 10 months ago by • 0
3
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4
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8.6k
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Calculation of module membership in WGCNA
WGCNA RNA-seq ModuleMembership Network Hub gene
written 5.5 years ago by ▴ 80
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5
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1.1k
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WGCNA
WGCNA Normalization RNASeq
written 12 months ago by • 0
6
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8
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6.0k
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WGCNA coupled with differential expression analysis: question about baseline module detection
wgcna WGCNA
written 5.9 years ago by ▴ 60
0
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1
reply
1.1k
views
WGCNA
WGCNA DESeq2
updated 10 months ago by ★ 5.0k • written 10 months ago by • 0
11
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6
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5.1k
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WGCNA with paired samples
wgcna paired samples exercise
updated 12 months ago by • 0 • written 9.5 years ago by ▴ 60
0
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1
reply
955
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In WGCNA, what networkType should be used in pickSoftThreshold for a Signed Nowick TomType
WGCNA pickSoftThreshold SignedNowick
updated 12 months ago by ★ 5.0k • written 12 months ago by • 0
0
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1
reply
768
views
WGCNA sample-data preprocessing order
Microarray WGCNA GeneExpression
updated 13 months ago by ★ 5.0k • written 13 months ago by • 0
0
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2
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712
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WGCNA: Can we use high power (26) for signed network?
Networkanalysis RNA-seqdata Powerselection WGCNA
13 months ago Vinesh • 0
0
votes
1
reply
390
views
Ph.D. scholar
WGCNA DataNormalization MicroarrayData
updated 13 months ago by ★ 5.0k • written 13 months ago by • 0
0
votes
1
reply
842
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WGCNA with TPM tables
RNASeq WGCNA ComparativeGenomics
updated 15 months ago by ★ 5.0k • written 15 months ago by • 0
0
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0
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566
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WGCNA module preservation using only adjacency matrix
WGCNA
15 months ago yang1641 • 0
3
votes
4
replies
1.9k
views
What should be the normalization protocol for RNA seq data for WGCNA?
RNA_seqdata Normalization_method WGCNA
16 months ago sukeshinik5 ▴ 20
1
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1
reply
1.0k
views
WGCNA
DEGselection RNASeqData WGCNA
updated 16 months ago by ▴ 760 • written 16 months ago by • 0
0
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0
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677
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WGCNA: Problem with selecting soft threshold
biologicalnetworkanalysis genomes RNA-Seq co-expression wgcna
17 months ago Fernanda • 0
0
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1
reply
832
views
WGCNA Choosing soft threshold power below R^2 0.8
WGCNA
updated 17 months ago by ▴ 760 • written 17 months ago by • 0
0
votes
1
reply
803
views
Ideal approach to adjust for covariates for WGCNA
WGCNA wgcna
updated 17 months ago by 68k • written 17 months ago by • 0
1
vote
3
replies
4.9k
views
WGNCA kME vs. kIM
WGCNA
updated 21 months ago by • 0 • written 10.4 years ago by ▴ 30
0
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0
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604
views
query regarding how to apply WGCNA on replicates
replicatesRNAseq WGCNA
21 months ago k200987 • 0
0
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2
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1.0k
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voom(calcNormFactors()) for normalization of RNAseq counts for WGCNA
Voom Limma WGCNA
23 months ago Gimena • 0
0
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2
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1.1k
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WGCNA: analysis of complex trait associations with regressions
Regression WGCNA
23 months ago w.cookson • 0
0
votes
1
reply
755
views
problem with ClusterRepro function
WGCNA
updated 23 months ago by 68k • written 23 months ago by • 0
0
votes
1
reply
1.4k
views
WGCNA | plotDendroAndColors ERROR
plotDendroAndColor WGCNA
updated 2.0 years ago by ★ 5.0k • written 2.0 years ago by • 0
0
votes
2
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1.8k
views
Trouble generating a dendrogram with colored gene modules using WGCNA for large RNA-seq experiment
WGCNA
written 2.2 years ago by • 0
4
votes
3
replies
3.3k
views
WGCNA documentation not available
WGCNA
written 2.2 years ago by ▴ 10
0
votes
2
replies
3.0k
views
using WGCNA, positive or negative corrlation between genes composing modules.
correlation wgcna network
updated 21 months ago by • 0 • written 3.3 years ago by • 0
0
votes
1
reply
1.7k
views
WGCNA correlation sign differences between eigen genes/ hub genes and clinical traits
hub correlation eigen WGCNA
updated 2.2 years ago by • 0 • written 4.2 years ago by • 0
1
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2
replies
2.1k
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Different results from blockwiseModules and blockwiseConsensusModules individual TOM
RNASeqData WGCNA consensusnetworks
2.2 years ago Levi • 0
0
votes
2
replies
891
views
WGCNA less samples
RNA-Seq WGCNA Worms
2.3 years ago davca • 0
0
votes
1
reply
1.1k
views
WGCNA tutorial docs needed: Horvath Lab site down
WGCNA
updated 2.3 years ago by ★ 5.0k • written 2.3 years ago by • 0
1
vote
2
replies
1.4k
views
How do I select a subset of genes for functional enrichment(GO/KEGG) analysis from WGCNA results?
WGCNA
written 2.3 years ago by ▴ 10
0
votes
1
reply
906
views
TOMsimilarityFromExpr the returned matrix has NaN values except for diagonal 1
TOMsimilarityFromExpr WGCNA
updated 2.5 years ago by ★ 5.0k • written 2.5 years ago by • 0
0
votes
1
reply
5.2k
views
Is it proper to compare two WGCNA matrixes if they were raised to different power (soft threshold)?
Network cluster WGCNA RNASeq
updated 2.6 years ago by 68k • written 2.6 years ago by • 0
1
vote
1
reply
1.0k
views
WGCNA Cluster batch effect
BatchEffect TCGA WGCNA
updated 2.7 years ago by ★ 5.0k • written 2.7 years ago by • 0
0
votes
1
reply
1.5k
views
Hub genes selection in WGCNA
wgcna WGCNA hubgene
updated 2.7 years ago by ★ 5.0k • written 2.7 years ago by ▴ 20
2
votes
5
replies
2.5k
views
DESeq2 remove batch effect
BatchEffect RNASeqData WGCNA DESeq2
updated 22 months ago by • 0 • written 2.7 years ago by • 0
3
votes
6
replies
1.7k
views
Question on constructing design matrix and defining contrasts for analysis
wgcna DESeq2 edgeR limma design
updated 2.7 years ago by 53k • written 2.7 years ago by ▴ 10
1
vote
0
replies
1.1k
views
WGCNA of two different cohorts study
DifferentialExpression WGCNA
updated 2.7 years ago by 43k • written 2.8 years ago by ▴ 20
2
votes
1
reply
1.2k
views
WGCNA: many over and under-expressed features in modules of a signed network
WGCNA wgcna_package
updated 2.7 years ago by ▴ 50 • written 2.8 years ago by ▴ 10
0
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0
replies
887
views
blockwiseConsensusModules won't save individualTOM data?
blockwiseconsensusModules WGCNA consensus
2.8 years ago Levi • 0
3
votes
7
replies
2.8k
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
2.8 years ago Ortega-C ▴ 10
0
votes
1
reply
954
views
WGCNA for one perturbation time series (pooled from two independent replicates)?
WGCNA
updated 2.8 years ago by ★ 5.0k • written 2.8 years ago by • 0
0
votes
0
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1.1k
views
Problems with the input (from TPM) - How to remove isoforms in WGCNA
Arabidopsis_thaliana removeisoforms WGCNA
2.8 years ago Ortega-C ▴ 10
0
votes
2
replies
1.2k
views
WGCNA problem
WGCNA
updated 2.8 years ago by ▴ 10 • written 2.9 years ago by • 0
0
votes
0
replies
1.1k
views
WGCNA approach on multiregional brain transcriptomes
Neurotranscriptome RNAseq WGCNA
2.9 years ago Levi • 0
0
votes
0
replies
850
views
Module Trait Corelation
WGCNA
2.9 years ago allanokwaro • 0
2
votes
3
replies
2.0k
views
Batch correction and Deseq2
DESeq2 WGCNA Normalization NormalyzerDE BatchEffect
updated 2.9 years ago by ★ 5.0k • written 3.0 years ago by ▴ 20
336 results • Page 1 of 7
Recent ...
Replies
Comment: Can sample-level weights be used when analysing GSVA scores in limma? by A.Barden ▴ 20
Thanks both for this useful information.
Comment: Reproducibility of code in various Bioconductor versions by Gordon Smyth 53k
SNPlocs.Hsapiens.dbSNP155.GRCh38 is available for download from the same location as always. It has not changed since Bioc 3.20: Presumabl…
Comment: Changing multiple display parameters of a specific exon in GeneRegionTrack by a2a2hd42aa • 0
Similarly, for structural complexity in the [He777 Game][1] APK, having precise control over every detail is what makes a high-performance …
Answer: Issue loading and downloading Bioconductor 3.22 packages after update by strawberry3 • 0
Hi, thank you all for the advice. Using James's advice, I managed to install SNPlocs.Hsapiens.dbSNP155.GRCh38, but it took almost half an …
Answer: Issue loading and downloading Bioconductor 3.22 packages after update by James W. MacDonald 68k
As Robert and ATpoint have mentioned, you need to allow more time to download a large file like this. ``` > options(timeout = 5e5) > l…
Votes
Answer: Can sample-level weights be used when analysing GSVA scores in limma?
Answer: Can sample-level weights be used when analysing GSVA scores in limma?
Comment: Can sample-level weights be used when analysing GSVA scores in limma?
Answer: Issue loading and downloading Bioconductor 3.22 packages after update
Answer: Issue loading and downloading Bioconductor 3.22 packages after update
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Scholar to Gordon Smyth 53k
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