Showing : network • reset
0
votes
1
reply
285
views
WGCNA Soft Power
Normalization DESeq2 Network RNASeqData
updated 3 months ago by ★ 4.1k • written 3 months ago by • 0
1
vote
1
reply
838
views
How to select subnetworks, or regions, with a certain number of nodes or edges with RCy3
Network RCy3
updated 3 months ago by ▴ 20 • written 4 months ago by ▴ 90
0
votes
2
replies
338
views
StringDB: Cannot use payload mechanism to colour nodes
RNASeqData STRINGdb DifferentialExpression GraphAndNetwork Network
4 months ago Luca • 0
0
votes
1
reply
886
views
using WGCNA, positive or negative corrlation between genes composing modules.
correlation wgcna network
updated 4 months ago by • 0 • written 17 months ago by • 0
1
vote
10
replies
2.0k
views
Interprteting the phylogenomic profiles plot
syntenet synteny Network
written 17 months ago by • 0
0
votes
1
reply
2.0k
views
Is it proper to compare two WGCNA matrixes if they were raised to different power (soft threshold)?
Network cluster WGCNA RNASeq
updated 9 months ago by 65k • written 9 months ago by • 0
0
votes
0
replies
529
views
News: Course - Network Analysis in Systems Biology with R/Bioconductor
Bioconductor Network RNASeqData SystemsBiology
9 months ago info ▴ 10
0
votes
3
replies
568
views
Clustering coefficient of synteny network
Network syntenet Clustering coefficient
10 months ago • updated 9 months ago Alexandros • 0
0
votes
0
replies
749
views
WGCNA: minModuleSize is not responding correctly
wgcna Network WGCNA minModuleSize
17 months ago bioinformaticssrm2011 • 0
0
votes
0
replies
732
views
Gene co-expression network analysis with small sample size
Network
18 months ago Senthil • 0
0
votes
0
replies
520
views
WCGNA: Using Eigengenes when correlating modules to external features? What about PC2, PC3???
Network Transcriptomics MicrobiomeData RNASEQ WCGNA
19 months ago Julieta • 0
2
votes
1
reply
790
views
WGCNA: weird issue of module with a single gene
network co-expression WGCNA
updated 19 months ago by ▴ 50 • written 19 months ago by ▴ 10
0
votes
1
reply
1.2k
views
WGCNA: Obtaining a consensus network from sampledBlockwiseModules function output
Network consensus sampledBlockwiseModules resampling WGCNA
updated 2.3 years ago by ★ 3.0k • written 2.3 years ago by ▴ 30
0
votes
1
reply
970
views
Trouble with gene dendrogram
Network RNASeq WGCNA
updated 15 months ago by • 0 • written 2.4 years ago by ▴ 10
0
votes
0
replies
724
views
WGCNA error during network construction
WGCNA Network R
2.6 years ago gitanjali • 0
0
votes
1
reply
1.6k
views
Network analysis: Is low confidence score valid (STRING DB)
STRINGdb Network
updated 2.9 years ago by ★ 3.9k • written 2.9 years ago by • 0
0
votes
0
replies
848
views
Job: Postdoc in computational cancer biology at IEO, Milan, Italy
TCGAbiolinks BiomedicalInformatics Network
3.1 years ago martin.schaefer • 0
0
votes
0
replies
1.2k
views
Why is `scale-free topology` estimated as -sign(slope) * (R^2) in WGCNA?
Network StatisticalMethod WGCNA ExpressionData
3.3 years ago jol.espinoz ▴ 40
15
votes
17
replies
23k
views
WGCNA: What is `soft thresholding`?
wgcna network analysis network correlation coexpression
updated 3.4 years ago by ▴ 730 • written 7.6 years ago by ▴ 40
4
votes
2
replies
1.1k
views
iSEE - Custom Panel
Network GeneNetwork iSEE
updated 3.5 years ago by ★ 28k • written 3.5 years ago by • 0
3
votes
2
replies
5.0k
views
Calculation of module membership in WGCNA
WGCNA RNA-seq ModuleMembership Network Hub gene
updated 23 months ago by ▴ 10 • written 3.7 years ago by ▴ 80
0
votes
2
replies
2.1k
views
Soft-threshold in WGCNA
wgcna network bicor threshold
updated 3.7 years ago by ★ 3.0k • written 3.7 years ago by ▴ 80
2
votes
0
replies
510
views
Quality Metrics for Graph Clustering for Biological Networks
R protein-interaction networks network
3.9 years ago hamza_karakurt ▴ 50
5
votes
2
replies
4.1k
views
[WGCNA]How to visualize network of genes in one module
WGCNA network
updated 4.2 years ago by ★ 3.9k • written 4.2 years ago by ▴ 30
2
votes
4
replies
1.8k
views
Case-control study using WGCNA
wgcna network rna-seq
4.4 years ago ag1805x ▴ 80
1
vote
1
reply
1.5k
views
WGCNA gene clusters vs eigengenes
wgcna network coexpression eigengenes
updated 4.7 years ago by 50k • written 4.7 years ago by ▴ 10
2
votes
1
reply
1.4k
views
Normalize within-/between-samples RNA-seq counts to weight networks
normalization CQN deseq2 RNA-seq network
updated 4.9 years ago by 41k • written 4.9 years ago by • 0
4
votes
3
replies
912
views
WGCNA from different lengths RNAseq read
wgcna network co-expression rnaseq
updated 5.0 years ago by ★ 3.0k • written 5.0 years ago by ▴ 80
7
votes
9
replies
3.7k
views
WGCNA - networking RNA seq gives only one module!
WGCNA R network co-expression
updated 15 months ago by ★ 3.0k • written 5.0 years ago by ▴ 10
0
votes
1
reply
1.5k
views
igraph clustering for gene coexpression network
igraph network gene corexpression rna-seq
updated 2.7 years ago by 50k • written 5.1 years ago by • 0
0
votes
0
replies
795
views
Help with creating tumor cell line network
nci network
5.9 years ago torgeirous • 0
0
votes
0
replies
1.0k
views
Help with generating network from gene expression data
gene expression network cytoscape
6.3 years ago torgeirous • 0
1
vote
1
reply
1.3k
views
Setting soft threshold when comparing 2 networks in WGCNA?
wgcna coexpression cooccurrence coabundance network
updated 6.5 years ago by ▴ 730 • written 6.6 years ago by ▴ 40
1
vote
1
reply
1.5k
views
Custom scoring for subnetworks in BioNet
bionet network
updated 7.9 years ago by ▴ 120 • written 7.9 years ago by ▴ 660
1
vote
2
replies
1.3k
views
Additional high-scoring subnetworks in BioNet
bionet network
updated 7.9 years ago by ▴ 120 • written 7.9 years ago by ▴ 660
0
votes
2
replies
2.7k
views
WGCNA - Using real data for tutorial III
pathways wgcna network rna-seq
8.3 years ago hywel.williams • 0
5
votes
14
replies
4.8k
views
Connection Refused on port 9000 - RCytoscape
rcytoscape r network graphBAM object
updated 8.4 years ago by ★ 8.2k • written 8.4 years ago by ▴ 50
0
votes
0
replies
1.2k
views
Job: Post-doc: Bioinformatics/Metabolic networks (Genoscope, near Paris, France)
network metabolism post-doc Job
8.5 years ago kbastard • 0
2
votes
5
replies
1.4k
views
runing NetBenchmark on my own datasets
software error network
updated 8.5 years ago by ▴ 20 • written 8.6 years ago by ▴ 40
0
votes
0
replies
1.2k
views
PSICQUIC: Direction of interaction
network protein interaction analysis
8.8 years ago kmezhoud ▴ 10
1
vote
2
replies
2.9k
views
cnetplot() - library(clusterProfiler)
clusterProfiler network
8.9 years ago cristina della beffa ▴ 30
0
votes
0
replies
1.5k
views
Job: Help with finding R tutors for microarray analysis, next generation sequencing and constructing gene interaction networks needed
bioconductor microarray network tutoring differential gene expression Job
9.4 years ago Thomas.F.Hahn2 • 0
1
vote
7
replies
2.7k
views
Shiny app for RefNet, PSICQUIC: annotated protein/protein interactions
shiny network interactions
9.5 years ago pshannon ▴ 100
1
vote
2
replies
4.0k
views
Rearrange dendrogram to match merged modules in WGCNA?
wgcna dendrogram network hclust
updated 9.6 years ago by ▴ 180 • written 9.6 years ago by ▴ 250
2
votes
6
replies
4.6k
views
Error running TOMplot in WGCNA package
wgcna network
updated 9.6 years ago by ▴ 180 • written 9.6 years ago by ▴ 250
7
votes
1
reply
3.4k
views
Using RNA-Seq raw count data in Weighted Gene Co-Expression Network Analysis
rnaseq network limma
updated 9.6 years ago by ★ 13k • written 9.6 years ago by ▴ 250
8
votes
4
replies
6.9k
views
WGCNA: overlapping colors in plotDendroAndColors?
wgcna plotDendroAndColors Network
updated 9.6 years ago by ★ 3.0k • written 9.6 years ago by ▴ 180
0
votes
0
replies
1.1k
views
回复： XVector
Network Cancer IRanges XVector
9.6 years ago Hervé Pagès 16k
1
vote
1
reply
1.4k
views
WGCNA_ Eigengene and sample complications correlations
Network Network
updated 9.8 years ago by ★ 3.0k • written 9.8 years ago by ▴ 130
0
votes
1
reply
1.6k
views
WGCNA_ problem in creating scale free topology plot
Network Network
updated 9.9 years ago by 65k • written 9.9 years ago by ▴ 130
50 results • Page 1 of 1
Recent ...
Replies
Comment: log2FoldChange value is way too different when compared with counts(dds) by Michael Love 41k
But just to be clear, this is not the same as regressing out batch from the VST (approx log transformed): ``` limma::removeBatchEffect(cou…
Comment: log2FoldChange value is way too different when compared with counts(dds) by HAK • 0
Thank you for the explanation, probably my brain just needed to accumulate enough info to understand what you are saying, but I finally got…
Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call by ATpoint ★ 4.1k
Here the error probably means that you habe genes where expression scross all samples is the same. Rowscaling is value minus mean divided b…
Comment: Store output of matchPWM() by James W. MacDonald 65k
Here's a self contained reproducible example, using part of the example in `?matchPWM` ``` > library(Biostrings) > data(HNF4alpha) > libr…
Comment: DEseq2 coefficient by JKim • 0
Hi Dr. Love, I'm sorry to ask another question to my old post. If the design isn't balanced, the interpretation of coefficients will be…
Votes
SPIA plotP giving error
Answer: Fold change calculation in Diffbind vs. DESEQ2?
C: How to establish a subset from TxDb.Hsapiens.UCSC.hg38.knownGene DB
C: Extremely big genes in annotation TxDb packages
Make custom Txdb class objects from Txdb
Awards • All
Popular Question to tangming2005 ▴ 190
Popular Question to Ian D. ▴ 70
Popular Question to junhui.li11 • 0
Scholar to James W. MacDonald 65k
Popular Question to jeffrey.maurer • 0
Locations • All
United States, 2 minutes ago
United States, 10 minutes ago
United States, 15 minutes ago
Belgium, 20 minutes ago
Germany, 41 minutes ago
Traffic: 695 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