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Showing :
coexpression
•
reset
0
votes
0
replies
370
views
Sample size on Differential Network Analysis
coexpression
WGCNA
23 months ago
Hanna
▴ 10
15
votes
17
replies
17k
views
WGCNA: What is `soft thresholding`?
wgcna
network analysis
network
correlation
coexpression
updated 2.2 years ago by
Lluís Revilla Sancho
▴ 710 • written 6.4 years ago by
jol.espinoz
▴ 40
1
vote
1
reply
782
views
WGCNA gene clusters vs eigengenes
wgcna
network
coexpression
eigengenes
updated 3.4 years ago by
Gordon Smyth
47k • written 3.4 years ago by
bioming
▴ 10
5
votes
3
replies
1.3k
views
Adjusting for known covariates before coexpression analysis with WGCNA
wgcna
coexpression
sva
updated 3.7 years ago by
Peter Langfelder
★ 2.7k • written 3.7 years ago by
mikhael.manurung
▴ 270
3
votes
7
replies
1.6k
views
novice: building gene co-expression network using RNA-Seq data
rna-seq
WGCNA
deseq
method
coexpression
updated 4.8 years ago by
Peter Langfelder
★ 2.7k • written 4.8 years ago by
7kemZmani
▴ 10
0
votes
0
replies
534
views
Principle in selecting the "appropriate" merging value for module generation
wgcna
module
mergecutheight
coexpression
4.8 years ago
tarun2
• 0
0
votes
1
reply
679
views
Differential Coexpression Analysis
differential analysis
differential gene expression
coexpression
correlation
updated 4.9 years ago by
Peter Langfelder
★ 2.7k • written 4.9 years ago by
hkarakurt
▴ 20
0
votes
0
replies
1.2k
views
How to interpret WGCNA's modulePreservation output when comparing 2 networks?
wgcna
modules
coexpression
networks
4.9 years ago
jol.espinoz
▴ 40
0
votes
0
replies
461
views
correlation between PCGs and the neighboring lncRNAs using LINC
coexpression
linc
LINC package
4.9 years ago
edoardobertolini
• 0
2
votes
1
reply
885
views
How to know which soft threshold to use for blockwise modules in WGCNA?
wgcna
coexpression
transcriptome
updated 5.0 years ago by
Peter Langfelder
★ 2.7k • written 5.0 years ago by
jol.espinoz
▴ 40
1
vote
1
reply
717
views
Setting soft threshold when comparing 2 networks in WGCNA?
wgcna
coexpression
cooccurrence
coabundance
network
updated 5.3 years ago by
Lluís Revilla Sancho
▴ 710 • written 5.3 years ago by
jol.espinoz
▴ 40
0
votes
2
replies
1.3k
views
Cutoff for coexpressed gene pairs using Pearson/Spearman correlation
microarray
pearsoncorrelation
coexpression
spearman
updated 5.9 years ago by
James W. MacDonald
62k • written 5.9 years ago by
juls
• 0
1
vote
0
replies
994
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
6.8 years ago
m.fletcher
▴ 20
3
votes
2
replies
2.0k
views
Finding nearest neighbors of given hub gene in a co-expression network module
wgcna
rbgl
graph
coexpression
hub genes
updated 6.9 years ago by
Peter Langfelder
★ 2.7k • written 6.9 years ago by
Alan Smith
▴ 150
1
vote
7
replies
3.6k
views
How to create "trait data" file for WGCNA
wgcna
coexpression
correlation
microarray
updated 7.0 years ago by
Peter Langfelder
★ 2.7k • written 7.0 years ago by
shalinisonar13
▴ 10
0
votes
1
reply
2.4k
views
WGCNA data format?
WGCNA
coexpression
microarray
updated 7.2 years ago by
Peter Langfelder
★ 2.7k • written 7.2 years ago by
michael.ridley6
• 0
5
votes
1
reply
3.6k
views
WGCNA - Compare module preservation between class
WGCNA
coexpression
updated 7.5 years ago by
Peter Langfelder
★ 2.7k • written 7.5 years ago by
abellonau
▴ 20
4
votes
5
replies
5.1k
views
WGCNA Tutorial Selection
wgcna
coexpression
updated 7.6 years ago by
Dan Tenenbaum
★ 8.2k • written 7.6 years ago by
ctruongctruong
▴ 10
18 results • Page
1 of 1
Recent ...
Replies
Comment: TCGA: clinical data and expression data
by
sharifnstu1203002m
• 0
Hello, I am in the same problem. I downloaded "transcriptome profiling" data of TCGA by using the Bioconductor package. I get my gene expr…
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
by
Jonathan Göke
▴ 40
Great to hear that you are using Bambu. Yes, I think that part of your question does not have one correct answer, there are many ways in wh…
Answer: Library sizes of miRNA sequencing data and TMM normalization with Edge-R
by
Gordon Smyth
47k
Choosing which samples to normalize together is not dependent on library size but rather on (1) whether the tissue samples are comparable a…
Comment: Atena package - error (new user)
by
lalanis1
• 0
Thanks a lot, Calvo. Will run my files with revised version soon! Best regards, Lalani
Comment: Nested paired design with covariates in limma
by
Gordon Smyth
47k
Please post a new question with enough detail to answer your question. If you want bespoke advance, then you need to post the details of yo…
Votes
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
Answer: Library sizes of miRNA sequencing data and TMM normalization with Edge-R
C: Can't install TopmedPipeline Package
Comment: Question about GWASTools gdsSubset
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
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