Showing : wgcna • reset
0
votes
4
replies
5.7k
views
blockwiseModule crashes in the end and doesn't generate modules
WGCNA
written 2.8 years ago by • 0
0
votes
1
reply
294
views
wgcna module preseravtion taking too long?
WGCNA
updated 6 weeks ago by ★ 5.0k • written 7 weeks ago by • 0
1
vote
2
replies
414
views
Can limma be used with module eigengenes instead of genes?
limma WGCNA GSVA
written 5 months ago by ▴ 20
0
votes
4
replies
817
views
Issue with Soft-Thresholding in WGCNA
WGCNA
written 10 months ago by • 0
3
votes
4
replies
8.5k
views
Calculation of module membership in WGCNA
WGCNA RNA-seq ModuleMembership Network Hub gene
written 5.5 years ago by ▴ 80
0
votes
5
replies
1.0k
views
WGCNA
WGCNA Normalization RNASeq
written 11 months ago by • 0
6
votes
8
replies
5.9k
views
WGCNA coupled with differential expression analysis: question about baseline module detection
wgcna WGCNA
written 5.8 years ago by ▴ 60
0
votes
1
reply
1.0k
views
WGCNA
WGCNA DESeq2
updated 9 months ago by ★ 5.0k • written 10 months ago by • 0
11
votes
6
replies
5.0k
views
WGCNA with paired samples
wgcna paired samples exercise
updated 11 months ago by • 0 • written 9.5 years ago by ▴ 60
0
votes
1
reply
898
views
In WGCNA, what networkType should be used in pickSoftThreshold for a Signed Nowick TomType
WGCNA pickSoftThreshold SignedNowick
updated 11 months ago by ★ 5.0k • written 12 months ago by • 0
0
votes
1
reply
722
views
WGCNA sample-data preprocessing order
Microarray WGCNA GeneExpression
updated 12 months ago by ★ 5.0k • written 12 months ago by • 0
0
votes
2
replies
680
views
WGCNA: Can we use high power (26) for signed network?
Networkanalysis RNA-seqdata Powerselection WGCNA
12 months ago Vinesh • 0
0
votes
1
reply
383
views
Ph.D. scholar
WGCNA DataNormalization MicroarrayData
updated 12 months ago by ★ 5.0k • written 12 months ago by • 0
0
votes
1
reply
809
views
WGCNA with TPM tables
RNASeq WGCNA ComparativeGenomics
updated 14 months ago by ★ 5.0k • written 14 months ago by • 0
0
votes
0
replies
540
views
WGCNA module preservation using only adjacency matrix
WGCNA
14 months ago yang1641 • 0
3
votes
4
replies
1.8k
views
What should be the normalization protocol for RNA seq data for WGCNA?
RNA_seqdata Normalization_method WGCNA
15 months ago sukeshinik5 ▴ 20
1
vote
1
reply
1.0k
views
WGCNA
DEGselection RNASeqData WGCNA
updated 16 months ago by ▴ 760 • written 16 months ago by • 0
0
votes
0
replies
661
views
WGCNA: Problem with selecting soft threshold
biologicalnetworkanalysis genomes RNA-Seq co-expression wgcna
16 months ago Fernanda • 0
0
votes
1
reply
776
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
778
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
4.7k
views
WGNCA kME vs. kIM
WGCNA
updated 20 months ago by • 0 • written 10.4 years ago by ▴ 30
0
votes
0
replies
595
views
query regarding how to apply WGCNA on replicates
replicatesRNAseq WGCNA
20 months ago k200987 • 0
0
votes
2
replies
978
views
voom(calcNormFactors()) for normalization of RNAseq counts for WGCNA
Voom Limma WGCNA
22 months ago Gimena • 0
0
votes
2
replies
1.1k
views
WGCNA: analysis of complex trait associations with regressions
Regression WGCNA
22 months ago w.cookson • 0
0
votes
1
reply
746
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 24 months ago by ★ 5.0k • written 24 months ago by • 0
0
votes
2
replies
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
3.2k
views
WGCNA documentation not available
WGCNA
written 2.2 years ago by ▴ 10
0
votes
2
replies
2.8k
views
using WGCNA, positive or negative corrlation between genes composing modules.
correlation wgcna network
updated 21 months ago by • 0 • written 3.2 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
vote
2
replies
2.0k
views
Different results from blockwiseModules and blockwiseConsensusModules individual TOM
RNASeqData WGCNA consensusnetworks
2.2 years ago • updated 2.1 years ago Levi • 0
0
votes
2
replies
880
views
WGCNA less samples
RNA-Seq WGCNA Worms
2.2 years ago davca • 0
0
votes
1
reply
1.1k
views
WGCNA tutorial docs needed: Horvath Lab site down
WGCNA
updated 2.2 years ago by ★ 5.0k • written 2.2 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
891
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
5.1k
views
Is it proper to compare two WGCNA matrixes if they were raised to different power (soft threshold)?
Network cluster WGCNA RNASeq
updated 2.5 years ago by 68k • written 2.5 years ago by • 0
1
vote
1
reply
994
views
WGCNA Cluster batch effect
BatchEffect TCGA WGCNA
updated 2.6 years ago by ★ 5.0k • written 2.6 years ago by • 0
0
votes
1
reply
1.5k
views
Hub genes selection in WGCNA
wgcna WGCNA hubgene
updated 2.6 years ago by ★ 5.0k • written 2.6 years ago by ▴ 20
2
votes
5
replies
2.5k
views
DESeq2 remove batch effect
BatchEffect RNASeqData WGCNA DESeq2
updated 21 months ago by • 0 • written 2.6 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 2.7 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 2.7 years ago by ▴ 10
0
votes
0
replies
880
views
blockwiseConsensusModules won't save individualTOM data?
blockwiseconsensusModules WGCNA consensus
2.7 years ago Levi • 0
3
votes
7
replies
2.7k
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
2.7 years ago Ortega-C ▴ 10
0
votes
1
reply
948
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
replies
1.0k
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 2.8 years ago by • 0
0
votes
0
replies
1.0k
views
WGCNA approach on multiregional brain transcriptomes
Neurotranscriptome RNAseq WGCNA
2.8 years ago Levi • 0
0
votes
0
replies
840
views
Module Trait Corelation
WGCNA
2.9 years ago allanokwaro • 0
2
votes
3
replies
1.9k
views
Batch correction and Deseq2
DESeq2 WGCNA Normalization NormalyzerDE BatchEffect
updated 2.9 years ago by ★ 5.0k • written 2.9 years ago by ▴ 20
336 results • Page 1 of 7
Recent ...
Replies
Comment: using limma trend workflow in CAMERA by Gordon Smyth 53k
No, `trend.var=TRUE` and `trend=TRUE` are not needed in any voom pipeline, because the trend is already incorporated into the voom weights.
Comment: Questions about bacon QC and correction on EWAS results by Tikaaa2sahaaaq2c • 0
In the world of mobile games, the 88ef game download has gained traction for its performance driven design [free download][1], similar to …
Comment: using limma trend workflow in CAMERA by A.Barden ▴ 20
Do you need to set trend.var=TRUE when using camera in the limma-voom pipeline with RNA-Seq data (as apposed to limma-trend pipeline)?
Comment: Upcoming Ensembl API and data access changes - new blog post available by Tikaaa2sahaaaq2c • 0
Just as the Ensembl team transitions to a new platform for streamlined data access, diners can benefit from a digital newks menu prices con…
Comment: Error message that there is no package called Biobase by DamionLedner99 • 0
thanks for sharing!!! https://cran.r-project.org/
Votes
Answer: What happens to genes with low dispersion during dispersion shrinkage in DESeq2
Comment: Are transformed values from rlog /vst log2 normalized counts?
Answer: Are transformed values from rlog /vst log2 normalized counts?
A: DESeq2 normalization vs VST vs rlog
Answer: How to directly decet the outlier samples (libraries) in EdgeR pipeline
Awards • All
Teacher to Michael Love 43k
Supporter to fl ▴ 20
Popular Question to James W. MacDonald 68k
Popular Question to rcavalca ▴ 140
Popular Question to James Aiden • 0
Locations • All
Germany, 49 minutes ago
United States, 1 hour ago
Australia, 1 hour ago
WEHI, Melbourne, Australia, 1 hour ago
United States, 2 hours ago
Traffic: 1167 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6