Showing : Network • reset
0
votes
0
replies
248
views
News: Online course: Network Analysis in Systems Biology with R/Bioconductor
SystemsBiology Bioconductor Network
4 months ago info ▴ 10
0
votes
1
reply
656
views
WGCNA Soft Power
Normalization DESeq2 Network RNASeqData
updated 8 months ago by ★ 4.5k • written 8 months ago by • 0
1
vote
1
reply
1.1k
views
How to select subnetworks, or regions, with a certain number of nodes or edges with RCy3
Network RCy3
updated 9 months ago by ▴ 30 • written 10 months ago by ▴ 90
0
votes
2
replies
617
views
StringDB: Cannot use payload mechanism to colour nodes
RNASeqData STRINGdb DifferentialExpression GraphAndNetwork Network
10 months ago Luca • 0
0
votes
2
replies
1.4k
views
using WGCNA, positive or negative corrlation between genes composing modules.
correlation wgcna network
updated 5 months ago by • 0 • written 22 months ago by • 0
1
vote
10
replies
2.4k
views
Interprteting the phylogenomic profiles plot
syntenet synteny Network
written 23 months ago by • 0
0
votes
1
reply
3.8k
views
Is it proper to compare two WGCNA matrixes if they were raised to different power (soft threshold)?
Network cluster WGCNA RNASeq
updated 14 months ago by 67k • written 14 months ago by • 0
0
votes
0
replies
717
views
News: Course - Network Analysis in Systems Biology with R/Bioconductor
Bioconductor Network RNASeqData SystemsBiology
15 months ago info ▴ 10
0
votes
3
replies
736
views
Clustering coefficient of synteny network
Network syntenet Clustering coefficient
15 months ago Alexandros • 0
0
votes
0
replies
1.0k
views
WGCNA: minModuleSize is not responding correctly
Network minModuleSize WGCNA wgcna
23 months ago • updated 17 days ago bioinformaticssrm2011 • 0
0
votes
0
replies
928
views
Gene co-expression network analysis with small sample size
Network
2.0 years ago Senthil • 0
0
votes
0
replies
640
views
WCGNA: Using Eigengenes when correlating modules to external features? What about PC2, PC3???
Network Transcriptomics MicrobiomeData RNASEQ WCGNA
2.1 years ago Julieta • 0
2
votes
1
reply
974
views
WGCNA: weird issue of module with a single gene
network co-expression WGCNA
updated 2.1 years ago by ▴ 50 • written 2.1 years ago by ▴ 10
0
votes
1
reply
1.5k
views
WGCNA: Obtaining a consensus network from sampledBlockwiseModules function output
Network consensus sampledBlockwiseModules resampling WGCNA
updated 2.7 years ago by ★ 3.0k • written 2.8 years ago by ▴ 30
0
votes
1
reply
1.1k
views
Trouble with gene dendrogram
Network RNASeq WGCNA
updated 21 months ago by • 0 • written 2.9 years ago by ▴ 10
0
votes
0
replies
914
views
WGCNA error during network construction
WGCNA Network R
3.0 years ago gitanjali • 0
0
votes
1
reply
2.0k
views
Network analysis: Is low confidence score valid (STRING DB)
STRINGdb Network
updated 3.3 years ago by ★ 4.0k • written 3.4 years ago by • 0
0
votes
0
replies
960
views
Job: Postdoc in computational cancer biology at IEO, Milan, Italy
TCGAbiolinks BiomedicalInformatics Network
3.5 years ago martin.schaefer • 0
0
votes
0
replies
1.4k
views
Why is `scale-free topology` estimated as -sign(slope) * (R^2) in WGCNA?
Network StatisticalMethod WGCNA ExpressionData
3.8 years ago jol.espinoz ▴ 40
15
votes
17
replies
25k
views
WGCNA: What is `soft thresholding`?
wgcna network analysis network correlation coexpression
updated 3.9 years ago by ▴ 750 • written 8.1 years ago by ▴ 40
4
votes
2
replies
1.3k
views
iSEE - Custom Panel
Network GeneNetwork iSEE
updated 3.9 years ago by ★ 28k • written 3.9 years ago by • 0
3
votes
2
replies
6.1k
views
Calculation of module membership in WGCNA
WGCNA RNA-seq ModuleMembership Network Hub gene
updated 2.4 years ago by ▴ 10 • written 4.2 years ago by ▴ 80
0
votes
2
replies
2.5k
views
Soft-threshold in WGCNA
wgcna network bicor threshold
updated 4.2 years ago by ★ 3.0k • written 4.2 years ago by ▴ 80
2
votes
0
replies
627
views
Quality Metrics for Graph Clustering for Biological Networks
R protein-interaction networks network
4.3 years ago hamza_karakurt ▴ 60
5
votes
2
replies
5.1k
views
[WGCNA]How to visualize network of genes in one module
WGCNA network
updated 4.7 years ago by ★ 4.0k • written 4.7 years ago by ▴ 30
2
votes
4
replies
2.1k
views
Case-control study using WGCNA
wgcna network rna-seq
4.8 years ago Arindam ▴ 80
1
vote
1
reply
1.8k
views
WGCNA gene clusters vs eigengenes
wgcna network coexpression eigengenes
updated 5.1 years ago by 51k • written 5.1 years ago by ▴ 10
2
votes
1
reply
1.7k
views
Normalize within-/between-samples RNA-seq counts to weight networks
normalization CQN deseq2 RNA-seq network
updated 5.4 years ago by 42k • written 5.4 years ago by • 0
4
votes
3
replies
1.1k
views
WGCNA from different lengths RNAseq read
wgcna network co-expression rnaseq
updated 5.5 years ago by ★ 3.0k • written 5.5 years ago by ▴ 80
7
votes
9
replies
4.5k
views
WGCNA - networking RNA seq gives only one module!
WGCNA R network co-expression
updated 21 months ago by ★ 3.0k • written 5.5 years ago by ▴ 10
0
votes
1
reply
1.8k
views
igraph clustering for gene coexpression network
igraph network gene corexpression rna-seq
updated 3.2 years ago by 51k • written 5.5 years ago by • 0
0
votes
0
replies
917
views
Help with creating tumor cell line network
nci network
6.4 years ago torgeirous • 0
0
votes
0
replies
1.2k
views
Help with generating network from gene expression data
gene expression network cytoscape
6.7 years ago torgeirous • 0
1
vote
1
reply
1.5k
views
Setting soft threshold when comparing 2 networks in WGCNA?
wgcna coexpression cooccurrence coabundance network
updated 7.0 years ago by ▴ 750 • written 7.0 years ago by ▴ 40
1
vote
1
reply
1.6k
views
Custom scoring for subnetworks in BioNet
bionet network
updated 8.3 years ago by ▴ 120 • written 8.3 years ago by ▴ 660
1
vote
2
replies
1.5k
views
Additional high-scoring subnetworks in BioNet
bionet network
updated 8.3 years ago by ▴ 120 • written 8.3 years ago by ▴ 660
0
votes
2
replies
2.9k
views
WGCNA - Using real data for tutorial III
pathways wgcna network rna-seq
8.8 years ago hywel.williams • 0
5
votes
14
replies
5.2k
views
Connection Refused on port 9000 - RCytoscape
rcytoscape r network graphBAM object
updated 8.8 years ago by ★ 8.2k • written 8.8 years ago by ▴ 50
0
votes
0
replies
1.3k
views
Job: Post-doc: Bioinformatics/Metabolic networks (Genoscope, near Paris, France)
network metabolism post-doc Job
9.0 years ago kbastard • 0
2
votes
5
replies
1.5k
views
runing NetBenchmark on my own datasets
software error network
updated 9.0 years ago by ▴ 20 • written 9.0 years ago by ▴ 40
0
votes
0
replies
1.4k
views
PSICQUIC: Direction of interaction
network protein interaction analysis
9.3 years ago kmezhoud ▴ 10
1
vote
2
replies
3.2k
views
cnetplot() - library(clusterProfiler)
clusterProfiler network
9.3 years ago cristina della beffa ▴ 30
0
votes
0
replies
1.6k
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
9.8 years ago Thomas.F.Hahn2 • 0
1
vote
7
replies
2.9k
views
Shiny app for RefNet, PSICQUIC: annotated protein/protein interactions
shiny network interactions
9.9 years ago pshannon ▴ 100
1
vote
2
replies
4.2k
views
Rearrange dendrogram to match merged modules in WGCNA?
wgcna dendrogram network hclust
updated 10.0 years ago by ▴ 180 • written 10.0 years ago by ▴ 250
2
votes
6
replies
5.0k
views
Error running TOMplot in WGCNA package
wgcna network
updated 10.1 years ago by ▴ 180 • written 10.1 years ago by ▴ 250
7
votes
1
reply
3.7k
views
Using RNA-Seq raw count data in Weighted Gene Co-Expression Network Analysis
rnaseq network limma
updated 10.1 years ago by ★ 13k • written 10.1 years ago by ▴ 250
8
votes
4
replies
7.3k
views
WGCNA: overlapping colors in plotDendroAndColors?
wgcna plotDendroAndColors Network
updated 10.1 years ago by ★ 3.0k • written 10.1 years ago by ▴ 180
0
votes
0
replies
1.2k
views
回复： XVector
Network Cancer IRanges XVector
10.1 years ago Hervé Pagès 16k
1
vote
1
reply
1.5k
views
WGCNA_ Eigengene and sample complications correlations
Network Network
updated 10.3 years ago by ★ 3.0k • written 10.3 years ago by ▴ 130
50 results • Page 1 of 1
Recent ...
Replies
Comment: How to reverse complement some elements of a DNAStringSet by Christine Jones • 0
Fantastic, thank you
Comment: When running contrasts, does it use normalized read counts? by Katherine • 0
Ok, so the comment I was given where they said DeSeq2 should be with normalized counts is incorrect. the ```normalized_counts``` variable …
Answer: How to reverse complement some elements of a DNAStringSet by James W. MacDonald 67k
You should always try the vectorized method first, rather than looping. ``` > myFasta[myFasta_rc] <- reverseComplement(myFasta[myFasta_…
Answer: When running contrasts, does it use normalized read counts? by James W. MacDonald 67k
A contrast is a comparison of two or more coefficients. When you run `nbiomWaldTest` you are fitting the GLM and estimating coefficients. T…
Comment: Too much data for Diffbind by Ou, Jianhong ★ 1.3k
Just in case if somebody still want to apply summits greater than 0 and got the same error, you can filter out the peaks with start positio…
Votes
Comment: featureCounts fails to load annotation file
Answer: How to reverse complement some elements of a DNAStringSet
Answer: KEGGgraph result difference
Answer: What should be the normalization protocol for RNA seq data for WGCNA?
What should be the normalization protocol for RNA seq data for WGCNA?
Awards • All
Scholar to James W. MacDonald 67k
Popular Question to shepherl 4.0k
Scholar to Gordon Smyth 51k
Popular Question to bioinformaticssrm2011 • 0
Popular Question to sukeshinik5 ▴ 20
Locations • All
France, 14 minutes ago
France, 53 minutes ago
United States, 1 hour ago
Iran, 1 hour ago
UPF, Barcelona, Spain, 1 hour ago
Traffic: 583 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