Showing : WGCNA • reset
0
votes
3
replies
1.6k
views
Help Generating Heat-maps between samples using WGCNA
WGCNA
6.2 years ago kgopotso.phakwago • 0
0
votes
0
replies
1.1k
views
Error on labeledHeatmap() function - WGCNA 1.68
WGCNA R
6.3 years ago feltrin88 • 0
1
vote
2
replies
1.0k
views
Using WGCNA for purposes other than RNA-SEQ/Microarray
WGCNA R
updated 6.3 years ago by ★ 3.0k • written 6.3 years ago by • 0
0
votes
1
reply
1.2k
views
use differences in expression as input for co-expression network?
wgcna co-expression
updated 6.3 years ago by ▴ 280 • written 6.3 years ago by ▴ 50
9
votes
4
replies
8.9k
views
WGCNA sample size minimum: why?
wgcna
updated 15 months ago by • 0 • written 6.3 years ago by ▴ 180
2
votes
6
replies
2.7k
views
RNA-Seq normalization for co-expression analysis
edger WGCNA limma
updated 6.3 years ago by 53k • written 6.3 years ago by ▴ 50
1
vote
1
reply
2.0k
views
how to filter genes in significant module?
RNA WGCNA filter
6.4 years ago modarzi ▴ 10
0
votes
0
replies
977
views
Error: non-numeric matrix extent in pickSoftThreshold.fromSimilarity, WGCNA
WGCNA
6.4 years ago MartinRK • 0
0
votes
3
replies
2.1k
views
Module membership vs gene significance result and Modules-trait relationships reuslt have a different trend
WGCNA
updated 6 months ago by • 0 • written 6.4 years ago by • 0
1
vote
2
replies
3.0k
views
WGCNA on methylation data
normalization DNA methylation WGCNA
updated 6.4 years ago by ★ 3.0k • written 6.4 years ago by • 0
5
votes
3
replies
1.7k
views
Steep dendrograms and few modules. WGCNA on RNA seq data
RNA seq wgcna
updated 6.5 years ago by ★ 3.0k • written 6.5 years ago by ▴ 20
0
votes
1
reply
2.5k
views
Error installing WGCNA for R 3.6 in RStudio Version 1.2.1335
installation error WGCNA compilation
updated 6.5 years ago by ★ 3.0k • written 6.5 years ago by • 0
5
votes
3
replies
3.2k
views
Adjusting for known covariates before coexpression analysis with WGCNA
wgcna coexpression sva
updated 6.5 years ago by ★ 3.0k • written 6.5 years ago by ▴ 280
1
vote
5
replies
1.9k
views
Error in sizeRestrictedClusterMerge: replace is not a multiple of replacement length
wgcna
updated 6.5 years ago by ★ 3.0k • written 6.5 years ago by ▴ 760
7
votes
4
replies
4.7k
views
Minimum number of samples per treatment/group for WGCNA analysis
WGCNA RNA-seq GCN gene coexpression network
updated 6.5 years ago by ▴ 20 • written 6.5 years ago by ▴ 50
1
vote
1
reply
1.0k
views
Module preservation using adjacency matrix (WGCNA)
wgcna
updated 6.5 years ago by ★ 3.0k • written 6.5 years ago by ▴ 30
4
votes
3
replies
1.4k
views
WGCNA from different lengths RNAseq read
wgcna network co-expression rnaseq
updated 6.5 years ago by ★ 3.0k • written 6.5 years ago by ▴ 80
7
votes
9
replies
6.1k
views
WGCNA - networking RNA seq gives only one module!
WGCNA R network co-expression
updated 2.8 years ago by ★ 3.0k • written 6.5 years ago by ▴ 10
0
votes
1
reply
1.4k
views
WGCNA::modulePreservation - Error in make.unique(rownames(datRef)) : 'names' must be a character vector
R WGCNA
6.5 years ago Alex Nesmelov • 0
0
votes
0
replies
897
views
Plotting consensus eigengene networks for specific interesting modules?
wgcna
6.6 years ago rc1253 • 0
0
votes
1
reply
1.1k
views
Error in intramodularConnectivity(ADJ1, colorh1) : object 'colorh1' not found
error wgcna affymetrix data
updated 6.6 years ago by ★ 3.0k • written 6.6 years ago by • 0
1
vote
3
replies
2.0k
views
WGCNA Parameter Enforcement Stymied by Prior Batch-normalization of Multi-cohort Data?
median polish minKmeToStay bottleneck nodes reassignThresh WGCNA
updated 6.6 years ago by ★ 3.0k • written 6.6 years ago by • 0
0
votes
0
replies
1.1k
views
WGCNA: net$colors and module colors don't match up; module assignments are different
WGCNA
6.6 years ago cats_dogs ▴ 20
3
votes
1
reply
2.4k
views
Consensus modules preservation WGCNA
WGCNA Networks
updated 6.7 years ago by ★ 3.0k • written 6.7 years ago by ▴ 20
0
votes
1
reply
2.6k
views
Module membership vs gene significance does not correlate (WGCNA)
wgcna module membership gene significance
updated 6.7 years ago by ★ 3.0k • written 6.7 years ago by • 0
1
vote
1
reply
878
views
co-expresson network between LncRNA-mRNA
WGCNA
6.7 years ago yaghoub.amraei • 0
2
votes
3
replies
1.8k
views
Correlate WGCNA modules from 2 separate analyses (small and large RNA)
WGCNA
updated 6.7 years ago by ★ 3.0k • written 6.7 years ago by ▴ 60
4
votes
6
replies
1.8k
views
WGCNA: consensusTOM() doesn't save TOMs & returns setNames error (but sets are named)
WGCNA
updated 6.7 years ago by ★ 3.0k • written 6.7 years ago by ▴ 20
1
vote
2
replies
2.0k
views
Normalized transcript/exon counts for network analysis
drimseq dexseq wgcna sva
updated 6.7 years ago by ▴ 90 • written 6.7 years ago by ▴ 30
1
vote
2
replies
2.1k
views
WGCNA - confounding effect based on technical variables (some continuous)
WGCNA batch effect continuous
updated 6.8 years ago by ★ 3.0k • written 6.8 years ago by ▴ 20
0
votes
1
reply
1.1k
views
Isoform coexpression using WGCNA
WGCNA
6.8 years ago maya.kappil ▴ 30
0
votes
1
reply
2.1k
views
WGCNA soft threshold power showing very strange values
wgcna soft threshold r scale independence scale free topology model fit
updated 6.8 years ago by ★ 3.0k • written 6.8 years ago by • 0
1
vote
3
replies
3.3k
views
WGCNA: cleaning for sample outliers
microarray gene network WGCNA
updated 6.8 years ago by 0 • written 6.9 years ago by • 0
9
votes
7
replies
5.4k
views
WGCNA: relate modules to binary trait
WGCNA module eigengene binary trait R
updated 6.9 years ago by ▴ 30 • written 6.9 years ago by ▴ 50
1
vote
1
reply
1.8k
views
WGCNA threshold without prior knowledge of scale-free propery
wgcna weighted correlation network analysis correlation matrix scale-free topology metagenomics
updated 6.9 years ago by ★ 3.0k • written 6.9 years ago by • 0
0
votes
3
replies
4.3k
views
Module preservation WGCNA
wgcna wgcna package modulepreservation
written 6.9 years ago by ▴ 40
0
votes
1
reply
2.5k
views
WGCNA: Matching eigengenes to samples
wgcna wgcna package
6.9 years ago Jack • 0
12
votes
4
replies
5.2k
views
WGCNA following salmon/DESeq2
deseq2 wgcna salmon
updated 7.0 years ago by ★ 3.0k • written 7.0 years ago by ▴ 30
0
votes
2
replies
1.7k
views
Using Kendall's Tau rank correlation coefficient for creating WGCNA network
wgcna package wgcna
7.0 years ago anni.djurhuus • 0
3
votes
9
replies
3.5k
views
problem for finding soft thresholding in WGCNA algorithm
wgcna abline function Scale independence diagram
7.1 years ago modarzi ▴ 10
0
votes
0
replies
807
views
WGCNA chooseOneHubInEachModule Error
WGCNA chooseOneHubInEachModule
7.1 years ago sharvari gujja ▴ 40
6
votes
2
replies
6.4k
views
WGCNA: how to change module color
wgcna
updated 7.1 years ago by ★ 3.0k • written 7.1 years ago by ▴ 20
1
vote
0
replies
1.7k
views
dynamicTreeCut and WGCNA show clusters overlapping. Why is this?
dynamictreecut wgcna hierarchical clustering
7.1 years ago jol.espinoz ▴ 40
0
votes
0
replies
1.5k
views
consensus module relationship
wgcna wgcna package consensus
7.1 years ago 2323982403 ▴ 60
2
votes
4
replies
2.0k
views
Segfault error when loading WGCNA
wgcna wgcna package
7.2 years ago antoinefelden ▴ 10
0
votes
5
replies
2.1k
views
WGCNA Co-expression network analysis on cuffdiff output
WGCNA cuffdiff
7.2 years ago sbbinfo90 • 0
0
votes
1
reply
1.4k
views
How to interpret WGCNA exported result?
wgcna
updated 7.2 years ago by ★ 3.0k • written 7.2 years ago by • 0
2
votes
2
replies
6.4k
views
WGCNA extract genes from a module
WGCNA wgcna package
updated 7.2 years ago by ★ 3.0k • written 7.2 years ago by ▴ 10
1
vote
3
replies
1.8k
views
SampleNetwork in WGCNA
wgcna wgcna package
7.3 years ago 2323982403 ▴ 60
0
votes
0
replies
1.4k
views
Question: Problem for getting P-Value in Module-Trait Relationship in WGCNA
weighted correlation network analysis WGCNA P-Value
7.3 years ago modarzi ▴ 10
335 results • Page 4 of 7
Recent ...
Replies
Comment: Getting a large intercept with DESeq2 by Michael Love 43k
Thanks James -- Denise you can check the "note on factor levels" in the vignette. And I'd recommend `plotCounts()` for looking at individu…
Comment: Getting a large intercept with DESeq2 by James W. MacDonald 68k
As a trivial example, consider this: ``` > model.matrix(~Treatment, data.frame(Treatment = factor(rep(1:3, each = 4)))) (Intercept) Tre…
Answer: Getting a large intercept with DESeq2 by James W. MacDonald 68k
The default parameterization in R is a treatment-contrasts parameterization that sets one of your groups as the baseline. So the intercept …
Answer: Must I do pseudobulk analysis on Cell Surface Protein Labeling data of Single C by ATpoint ★ 5.0k
There is no "MUST", but pseudobulk aggregation is beneficial to a) enable use of tested and robust methods such as limma (though it could u…
Answer: Post translational modifications and phosphoproteomics in limpa? by Gordon Smyth 53k
Yes, we use limpa for PTMs ourselves. I assume your data is preprocessed so that each row corresponds to a PTM. You replace dpcQuant() with…
Votes
Answer: What R/Bioconductor tools would you recommend for the analysis of sncRNA, specif
Using edgeR or DESeq2 to analyze allele-specific expression?
Answer: DESeq2 design for haplotype MPRA
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Awards • All
Popular Question to Stephen Piccolo ▴ 600
Popular Question to Maria Doyle ▴ 100
Popular Question to Hervé Pagès 16k
Popular Question to shepherl 4.2k
Scholar to James W. MacDonald 68k
Locations • All
Russia, 2 hours ago
United States, 4 hours ago
Barcelona, Spain, 5 hours ago
The city by the bay, 6 hours ago
United States, 6 hours ago
Traffic: 1133 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