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coexpression
•
reset
0
votes
0
replies
895
views
Sample size on Differential Network Analysis
coexpression
WGCNA
3.3 years ago
Hanna
▴ 10
15
votes
17
replies
24k
views
WGCNA: What is `soft thresholding`?
wgcna
network analysis
network
correlation
coexpression
updated 3.6 years ago by
Lluís Revilla Sancho
▴ 730 • written 7.8 years ago by
jol.espinoz
▴ 40
1
vote
1
reply
1.6k
views
WGCNA gene clusters vs eigengenes
wgcna
network
coexpression
eigengenes
updated 4.8 years ago by
Gordon Smyth
51k • written 4.8 years ago by
bioming
▴ 10
5
votes
3
replies
2.2k
views
Adjusting for known covariates before coexpression analysis with WGCNA
wgcna
coexpression
sva
updated 5.1 years ago by
Peter Langfelder
★ 3.0k • written 5.1 years ago by
mikhael.manurung
▴ 280
3
votes
7
replies
2.4k
views
novice: building gene co-expression network using RNA-Seq data
rna-seq
WGCNA
deseq
method
coexpression
updated 6.2 years ago by
Peter Langfelder
★ 3.0k • written 6.2 years ago by
7kemZmani
▴ 10
0
votes
0
replies
888
views
Principle in selecting the "appropriate" merging value for module generation
wgcna
module
mergecutheight
coexpression
6.2 years ago
tarun2
• 0
0
votes
1
reply
1.1k
views
Differential Coexpression Analysis
differential analysis
differential gene expression
coexpression
correlation
updated 6.3 years ago by
Peter Langfelder
★ 3.0k • written 6.3 years ago by
hkarakurt
▴ 20
0
votes
0
replies
1.8k
views
How to interpret WGCNA's modulePreservation output when comparing 2 networks?
wgcna
modules
coexpression
networks
6.3 years ago
jol.espinoz
▴ 40
0
votes
0
replies
750
views
correlation between PCGs and the neighboring lncRNAs using LINC
coexpression
linc
LINC package
6.3 years ago
edoardobertolini
• 0
2
votes
1
reply
1.4k
views
How to know which soft threshold to use for blockwise modules in WGCNA?
wgcna
coexpression
transcriptome
updated 6.4 years ago by
Peter Langfelder
★ 3.0k • written 6.4 years ago by
jol.espinoz
▴ 40
1
vote
1
reply
1.3k
views
Setting soft threshold when comparing 2 networks in WGCNA?
wgcna
coexpression
cooccurrence
coabundance
network
updated 6.7 years ago by
Lluís Revilla Sancho
▴ 730 • written 6.7 years ago by
jol.espinoz
▴ 40
0
votes
2
replies
1.9k
views
Cutoff for coexpressed gene pairs using Pearson/Spearman correlation
microarray
pearsoncorrelation
coexpression
spearman
updated 7.3 years ago by
James W. MacDonald
66k • written 7.3 years ago by
juls
• 0
1
vote
0
replies
1.4k
views
Gene Set Testing or GSEA for functional annotation of co-expressed ncRNA and coding genes
gsea
ncrna
coexpression
gene set analysis
gene set testing
8.2 years ago
m.fletcher
▴ 20
3
votes
2
replies
2.6k
views
Finding nearest neighbors of given hub gene in a co-expression network module
wgcna
rbgl
graph
coexpression
hub genes
updated 8.3 years ago by
Peter Langfelder
★ 3.0k • written 8.3 years ago by
Alan Smith
▴ 150
2
votes
7
replies
4.7k
views
How to create "trait data" file for WGCNA
wgcna
coexpression
correlation
microarray
updated 8.4 years ago by
Peter Langfelder
★ 3.0k • written 8.4 years ago by
shalinisonar13
▴ 20
0
votes
1
reply
2.7k
views
WGCNA data format?
WGCNA
coexpression
microarray
updated 8.6 years ago by
Peter Langfelder
★ 3.0k • written 8.6 years ago by
michael.ridley6
• 0
13
votes
1
reply
4.7k
views
WGCNA - Compare module preservation between class
WGCNA
coexpression
updated 8.9 years ago by
Peter Langfelder
★ 3.0k • written 8.9 years ago by
abellonau
▴ 60
4
votes
5
replies
6.3k
views
WGCNA Tutorial Selection
wgcna
coexpression
updated 9.0 years ago by
Dan Tenenbaum
★ 8.2k • written 9.0 years ago by
ctruongctruong
▴ 10
18 results • Page
1 of 1
Recent ...
Replies
Comment: Ranking the GSEA Results
by
Lluís Revilla Sancho
▴ 730
You can have the ranking without the cutoff. If you don't keep any gene set after the cutoff then there is nothing to rank as you said, so…
Answer: Create a Graph w/ Only the Genes Interaction
by
Antonio
• 0
Thank you all, I solved my issue by creating a for loop. Cheers!
Comment: Ranking the GSEA Results
by
alserg
▴ 270
Apparently, it sends a notification to the developer on a new message after the tags were updated :) but not the change of tags itself
Comment: Ranking the GSEA Results
by
alserg
▴ 270
Where did you see ranking of genes by `log2FC * (-log10 p-value)`? I don't think I ever saw one and not sure what it should achieve. Aren't…
Comment: Trouble Installing DADA2 (warning: R new user)
by
shepherl
3.9k
As far as this ERROR for Bioc requires R version, Bioconductor is closely tied to an R release. Depending if you tried to use a premade s…
Votes
Comment: Ranking the GSEA Results
Error in `$<-.data.frame`(`*tmp*`, "dispersion", value = NA)
ChiPseeker package: plotAnnoPie identical colors for peakAnnoList features
Comment: How to get the DMR?
Answer: Using both voom and removeBatchEffect, will they double adjust the data or is it
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