Showing : wgcna • reset
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Help Generating Heat-maps between samples using WGCNA
WGCNA
6.2 years ago kgopotso.phakwago • 0
0
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0
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1.1k
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Error on labeledHeatmap() function - WGCNA 1.68
WGCNA R
6.2 years ago feltrin88 • 0
1
vote
2
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1.0k
views
Using WGCNA for purposes other than RNA-SEQ/Microarray
WGCNA R
updated 6.2 years ago by ★ 3.0k • written 6.2 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 6.2 years ago by ▴ 280 • written 6.3 years ago by ▴ 50
9
votes
4
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8.9k
views
WGCNA sample size minimum: why?
wgcna
updated 15 months ago by • 0 • written 6.3 years ago by ▴ 180
2
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6
replies
2.6k
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
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1
reply
2.0k
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how to filter genes in significant module?
RNA WGCNA filter
6.3 years ago modarzi ▴ 10
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0
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970
views
Error: non-numeric matrix extent in pickSoftThreshold.fromSimilarity, WGCNA
WGCNA
6.3 years ago MartinRK • 0
0
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3
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2.0k
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
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2
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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 6.4 years ago by ★ 3.0k • written 6.4 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 6.4 years ago by ★ 3.0k • written 6.4 years ago by • 0
5
votes
3
replies
3.1k
views
Adjusting for known covariates before coexpression analysis with WGCNA
wgcna coexpression sva
updated 6.4 years ago by ★ 3.0k • written 6.4 years ago by ▴ 280
1
vote
5
replies
1.9k
views
Error in sizeRestrictedClusterMerge: replace is not a multiple of replacement length
wgcna
updated 6.4 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
993
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
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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
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0
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892
views
Plotting consensus eigengene networks for specific interesting modules?
wgcna
6.6 years ago rc1253 • 0
0
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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
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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
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0
replies
1.0k
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
2.3k
views
Consensus modules preservation WGCNA
WGCNA Networks
updated 6.6 years ago by ★ 3.0k • written 6.6 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 6.6 years ago by ★ 3.0k • written 6.6 years ago by • 0
1
vote
1
reply
866
views
co-expresson network between LncRNA-mRNA
WGCNA
6.6 years ago yaghoub.amraei • 0
2
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3
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1.8k
views
Correlate WGCNA modules from 2 separate analyses (small and large RNA)
WGCNA
updated 6.6 years ago by ★ 3.0k • written 6.6 years ago by ▴ 60
4
votes
6
replies
1.7k
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
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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 6.7 years ago by ★ 3.0k • written 6.7 years ago by ▴ 20
0
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1
reply
1.1k
views
Isoform coexpression using WGCNA
WGCNA
6.7 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 6.7 years ago by ★ 3.0k • written 6.7 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 6.8 years ago by • 0
9
votes
7
replies
5.4k
views
WGCNA: relate modules to binary trait
WGCNA module eigengene binary trait R
updated 6.8 years ago by ▴ 30 • written 6.8 years ago by ▴ 50
1
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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
4.2k
views
Module preservation WGCNA
wgcna wgcna package modulepreservation
written 6.9 years ago by ▴ 40
0
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1
reply
2.5k
views
WGCNA: Matching eigengenes to samples
wgcna wgcna package
6.9 years ago Jack • 0
12
votes
4
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5.1k
views
WGCNA following salmon/DESeq2
deseq2 wgcna salmon
updated 6.9 years ago by ★ 3.0k • written 6.9 years ago by ▴ 30
0
votes
2
replies
1.6k
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
3.4k
views
problem for finding soft thresholding in WGCNA algorithm
wgcna abline function Scale independence diagram
7.0 years ago modarzi ▴ 10
0
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0
replies
802
views
WGCNA chooseOneHubInEachModule Error
WGCNA chooseOneHubInEachModule
7.0 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
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0
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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
7.1 years ago antoinefelden ▴ 10
0
votes
5
replies
2.1k
views
WGCNA Co-expression network analysis on cuffdiff output
WGCNA cuffdiff
7.1 years ago sbbinfo90 • 0
0
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1
reply
1.3k
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
7.2 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
7.2 years ago modarzi ▴ 10
335 results • Page 4 of 7
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Comment: Using DESeq2 for age prediction by ATpoint ★ 5.0k
You sure will find online tutorials on regression models / machine learning classifiers. The support site is for help with Bioconductor. Ch…
Comment: Using DESeq2 for age prediction by picasa1983 • 0
Thanks ! Do you have any idea how to do that ?
Answer: Using DESeq2 for age prediction by ATpoint ★ 5.0k
The package has no such inbuilt function but you are free to use the vst (or any normalized) counts to train a regression model or classifi…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by James W. MacDonald 68k
Aaron already answered your question. If you have an HDF5 file, it will be read in as a `TENxMatrix` object, which isn't actually read in -…
Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by dan.gatti • 0
Very strange. We have the same package versions. I tried adding the mtx.class, type, and delayed arguments, but it's still making the coun…
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A: Multi-level experiments in Limma
Answer: Should voomWithQualityWeights still be used when the sample-specific weights var
Answer: DESeq2 for candidate gene analysis
DESeq2 for candidate gene analysis
Answer: DESeq2 for candidate gene analysis
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