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Showing :
wgcna
•
reset
0
votes
0
replies
74
views
query regarding how to apply WGCNA on replicates
replicatesRNAseq
WGCNA
14 days ago
k200987
• 0
0
votes
2
replies
213
views
voom(calcNormFactors()) for normalization of RNAseq counts for WGCNA
Voom
Limma
WGCNA
8 weeks ago
Gimena
• 0
0
votes
2
replies
254
views
WGCNA: analysis of complex trait associations with regressions
Regression
WGCNA
8 weeks ago
w.cookson
• 0
0
votes
1
reply
196
views
problem with ClusterRepro function
WGCNA
updated 10 weeks ago by
James W. MacDonald
66k • written 10 weeks ago by
Antonio.Aubry
• 0
0
votes
1
reply
342
views
WGCNA | plotDendroAndColors ERROR
plotDendroAndColor
WGCNA
updated 3 months ago by
ATpoint
★ 4.2k • written 3 months ago by
Priya
• 0
0
votes
2
replies
573
views
Trouble generating a dendrogram with colored gene modules using WGCNA for large RNA-seq experiment
WGCNA
written 5 months ago by
aehall26
• 0
4
votes
3
replies
1.1k
views
WGCNA documentation not available
WGCNA
written 5 months ago by
ramonmassoni
▴ 10
1
vote
2
replies
720
views
Different results from blockwiseModules and blockwiseConsensusModules individual TOM
RNASeqData
WGCNA
consensusnetworks
6 months ago • updated 5 months ago
Levi
• 0
0
votes
2
replies
337
views
WGCNA less samples
RNA-Seq
WGCNA
Worms
6 months ago
davca
• 0
0
votes
1
reply
542
views
WGCNA tutorial docs needed: Horvath Lab site down
WGCNA
updated 6 months ago by
ATpoint
★ 4.2k • written 6 months ago by
ellen.francis
• 0
1
vote
1
reply
436
views
How do I select a subset of genes for functional enrichment(GO/KEGG) analysis from WGCNA results?
WGCNA
updated 7 months ago by
tangming2005
▴ 190 • written 7 months ago by
meenae
▴ 10
0
votes
1
reply
413
views
TOMsimilarityFromExpr the returned matrix has NaN values except for diagonal 1
TOMsimilarityFromExpr
WGCNA
updated 9 months ago by
ATpoint
★ 4.2k • written 9 months ago by
jiecn
• 0
0
votes
1
reply
2.2k
views
Is it proper to compare two WGCNA matrixes if they were raised to different power (soft threshold)?
Network
cluster
WGCNA
RNASeq
updated 10 months ago by
James W. MacDonald
66k • written 10 months ago by
chiwut.wong
• 0
1
vote
1
reply
514
views
WGCNA Cluster batch effect
BatchEffect
TCGA
WGCNA
updated 11 months ago by
ATpoint
★ 4.2k • written 11 months ago by
khaserdene99
• 0
0
votes
1
reply
656
views
Hub genes selection in WGCNA
wgcna
WGCNA
hubgene
updated 11 months ago by
ATpoint
★ 4.2k • written 11 months ago by
suphamon.j
▴ 20
2
votes
5
replies
1.2k
views
DESeq2 remove batch effect
BatchEffect
RNASeqData
WGCNA
DESeq2
updated 6 weeks ago by
Ashley
• 0 • written 11 months ago by
zxc741xb
• 0
3
votes
6
replies
870
views
Question on constructing design matrix and defining contrasts for analysis
wgcna
DESeq2
edgeR
limma
design
updated 12 months ago by
Gordon Smyth
50k • written 12 months ago by
mohammedtoufiq91
▴ 10
1
vote
0
replies
507
views
WGCNA of two different cohorts study
DifferentialExpression
WGCNA
updated 12 months ago by
Michael Love
42k • written 12 months ago by
suphamon.j
▴ 20
2
votes
1
reply
538
views
WGCNA: many over and under-expressed features in modules of a signed network
WGCNA
wgcna_package
updated 12 months ago by
andres.firrincieli
▴ 50 • written 12 months ago by
hesse.sebastian
▴ 10
0
votes
0
replies
447
views
blockwiseConsensusModules won't save individualTOM data?
blockwiseconsensusModules
WGCNA
consensus
12 months ago
Levi
• 0
3
votes
7
replies
1.3k
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
12 months ago
Ortega-C
▴ 10
0
votes
1
reply
539
views
WGCNA for one perturbation time series (pooled from two independent replicates)?
WGCNA
updated 13 months ago by
ATpoint
★ 4.2k • written 13 months ago by
Adam
• 0
0
votes
0
replies
567
views
Problems with the input (from TPM) - How to remove isoforms in WGCNA
Arabidopsis_thaliana
removeisoforms
WGCNA
13 months ago
Ortega-C
▴ 10
0
votes
2
replies
627
views
WGCNA problem
WGCNA
updated 13 months ago by
Ortega-C
▴ 10 • written 13 months ago by
mortezaali
• 0
0
votes
5
replies
1.8k
views
blockwiseModule crashes in the end and doesn't generate modules
WGCNA
written 13 months ago by
mauricio.microbiol
• 0
0
votes
0
replies
585
views
WGCNA approach on multiregional brain transcriptomes
Neurotranscriptome
RNAseq
WGCNA
13 months ago
Levi
• 0
0
votes
0
replies
458
views
Module Trait Corelation
WGCNA
14 months ago
allanokwaro
• 0
2
votes
3
replies
950
views
Batch correction and Deseq2
DESeq2
WGCNA
Normalization
NormalyzerDE
BatchEffect
updated 14 months ago by
ATpoint
★ 4.2k • written 14 months ago by
suphamon.j
▴ 20
0
votes
0
replies
468
views
How to draw module significance barplot?
module_significance
barplot
WGCNA
15 months ago
Sooni
▴ 10
0
votes
0
replies
495
views
Multiple way network preservation
wgcna
15 months ago
madzayasodara
• 0
0
votes
0
replies
550
views
WGCNA TOM file empty
WGCNA
TOM
15 months ago
gianni.drm
• 0
0
votes
0
replies
868
views
WGCNA Heatmap and Export to Cytoscape Not Working
Cytoscape
Heatmap
heatmaps
WGCNA
15 months ago
gianni.drm
• 0
0
votes
1
reply
912
views
WGCNA soft thresholding suggesting a power of 1
independence
thresholding
WGCNA
connectivity
scale
updated 12 weeks ago by
boczniak767
▴ 720 • written 15 months ago by
Kim
• 0
0
votes
1
reply
543
views
In WGCNA which is the matrix on which the eigen decomposition is run to get the module eigen gene
WGCNA
updated 16 months ago by
andres.firrincieli
▴ 50 • written 16 months ago by
S
• 0
0
votes
0
replies
638
views
Does verboseScatterplot in WGCNA package allow for highlighting a subset of genes
WGCNA
16 months ago
S
• 0
0
votes
0
replies
640
views
Problems running WGCNA
WGCNA
17 months ago
S
• 0
0
votes
0
replies
543
views
coexpression networks
WGCNA
igraph
18 months ago
María José
• 0
0
votes
0
replies
545
views
A question about GWENA R/Bioconductor package
proteomics
GWENA
Proteomics
WGCNA
18 months ago
Abdullah
• 0
0
votes
2
replies
983
views
using WGCNA, positive or negative corrlation between genes composing modules.
correlation
wgcna
network
updated 14 days ago by
mariakenneth147
• 0 • written 18 months ago by
pharamac
• 0
0
votes
0
replies
813
views
WGCNA: minModuleSize is not responding correctly
wgcna
Network
WGCNA
minModuleSize
18 months ago
bioinformaticssrm2011
• 0
2
votes
1
reply
820
views
WGCNA: weird issue of module with a single gene
network
co-expression
WGCNA
updated 20 months ago by
andres.firrincieli
▴ 50 • written 20 months ago by
ikumar2000
▴ 10
0
votes
1
reply
849
views
WGCNA - Network construction and module detection
gene
Clustering
wgcna
flashclust
updated 21 months ago by
andres.firrincieli
▴ 50 • written 21 months ago by
Recep
▴ 20
0
votes
0
replies
581
views
MM-GS plot doesn't show any negative correlation
wgcna
22 months ago
shubhankar.pawar
• 0
0
votes
1
reply
1000
views
WGCNA Export Eigengene Adjacency/Correlation values export
WGCNA
updated 22 months ago by
Cannabis Equipment Financing
• 0 • written 22 months ago by
803ebee7
• 0
0
votes
0
replies
647
views
ARACNe Sample Size
grndata
GRN
ARACNE
WGCNA
23 months ago
Harrsha
• 0
0
votes
0
replies
533
views
Enrichment in genomic regions
Enrichment
clusterPro
WGCNA
23 months ago
María José
• 0
0
votes
0
replies
625
views
How to create consensus network from SampledBlockwiseModules in WGCNA?
NetworkInference
SampledBlockWiseModules
WGCNA
23 months ago
as8020
• 0
0
votes
0
replies
434
views
WGCNA consensusMEDdissimilrity
WGCNA
2.1 years ago
María José
• 0
1
vote
3
replies
1.8k
views
WGCNA error
WGCNA
2.1 years ago
ayabalbaa1990
• 0
0
votes
0
replies
781
views
The gene clusters from the WGCNA dendrogram output are not in order
Clustering
WGCNA
2.1 years ago
chiwut.wong
• 0
50 results • Page
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Comment: How to run allelic imbalance in apeglm
by
parayod376
• 0
Which I care about. [Papa's games][1] thank you for sharing the information. [1]: https://papasgamesfree.github.io
Comment: Cannot install oligo on Fedora
by
James W. MacDonald
66k
FYI, I emailed Benilton and he says he's working on a fix, so stay tuned!
Answer: Error in render R qmd document (could not find function "process")
by
James W. MacDonald
66k
If you have functions in another R document, you have to `source` that document to load the functions into your workspace. Just like you wo…
Comment: Using featureCounts with SAF annotation file gives "Error: only GTF files contai
by
atan
• 0
Thank you! I ended up running it with a gtf on command line, partially because I couldn't figure out how to list multiple files in R for in…
Comment: Using featureCounts with SAF annotation file gives "Error: only GTF files contai
by
atan
• 0
For some reason, that's still not working for me on command line. I ended up figuring out another way around, though, by converting the g…
Votes
Reduce the number of nodes appear in the cnetplot of clusterprofiler
A: DESeq2: add annotations (from data frame) to DESeqDataSet
Answer: Error in gseDO function
Comment: what the test method for enrichGO in clusterProfiler?
A: Comparison between two different group's pathway analysis results
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