Showing : network • reset
0
votes
1
reply
169
views
WGCNA: Obtaining a consensus network from sampledBlockwiseModules function output
Network consensus sampledBlockwiseModules resampling WGCNA
updated 3 months ago by ★ 2.6k • written 4 months ago by ▴ 30
0
votes
0
replies
172
views
Trouble with gene dendrogram
Network RNASeq WGCNA
5 months ago jms2520 • 0
0
votes
0
replies
149
views
WGCNA error during network construction
WGCNA Network R
7 months ago gitanjali • 0
0
votes
1
reply
492
views
Network analysis: Is low confidence score valid (STRING DB)
STRINGdb Network
updated 11 months ago by 3.5k • written 11 months ago by • 0
0
votes
0
replies
287
views
Job: Postdoc in computational cancer biology at IEO, Milan, Italy
TCGAbiolinks BiomedicalInformatics Network
13 months ago martin.schaefer • 0
0
votes
0
replies
338
views
Why is `scale-free topology` estimated as -sign(slope) * (R^2) in WGCNA?
Network StatisticalMethod WGCNA ExpressionData
16 months ago jol.espinoz ▴ 40
15
votes
17
replies
14k
views
WGCNA: What is `soft thresholding`?
wgcna network analysis network correlation coexpression
updated 17 months ago by ▴ 660 • written 5.7 years ago by ▴ 40
4
votes
2
replies
462
views
iSEE - Custom Panel
Network GeneNetwork iSEE
updated 18 months ago by ★ 27k • written 18 months ago by • 0
2
votes
1
reply
1.5k
views
Calculation of module membership in WGCNA
WGCNA RNA-seq ModuleMembership Network Hub gene
updated 21 months ago by ★ 2.6k • written 21 months ago by ▴ 50
0
votes
2
replies
511
views
Soft-threshold in WGCNA
wgcna network bicor threshold
updated 21 months ago by ★ 2.6k • written 21 months ago by ▴ 50
2
votes
0
replies
163
views
Quality Metrics for Graph Clustering for Biological Networks
R protein-interaction networks network
23 months ago hamza_karakurt ▴ 50
2
votes
2
replies
854
views
[WGCNA]How to visualize network of genes in one module
WGCNA network
updated 2.3 years ago by 3.5k • written 2.3 years ago by ▴ 20
0
votes
4
replies
612
views
Case-control study using WGCNA
wgcna network rna-seq
2.4 years ago ag1805x ▴ 50
1
vote
1
reply
554
views
WGCNA gene clusters vs eigengenes
wgcna network coexpression eigengenes
updated 2.7 years ago by 45k • written 2.7 years ago by ▴ 10
2
votes
1
reply
695
views
Normalize within-/between-samples RNA-seq counts to weight networks
normalization CQN deseq2 RNA-seq network
updated 3.0 years ago by 36k • written 3.0 years ago by • 0
2
votes
3
replies
405
views
WGCNA from different lengths RNAseq read
wgcna network co-expression rnaseq
updated 3.0 years ago by ★ 2.6k • written 3.0 years ago by ▴ 50
6
votes
7
replies
1.5k
views
WGCNA - networking RNA seq gives only one module!
WGCNA R network co-expression
updated 3.1 years ago by ★ 2.6k • written 3.1 years ago by ▴ 10
0
votes
1
reply
623
views
igraph clustering for gene coexpression network
igraph network gene corexpression rna-seq
updated 9 months ago by 45k • written 3.1 years ago by • 0
0
votes
0
replies
412
views
Help with creating tumor cell line network
nci network
3.9 years ago torgeirous • 0
0
votes
0
replies
561
views
Help with generating network from gene expression data
gene expression network cytoscape
4.3 years ago torgeirous • 0
1
vote
1
reply
604
views
Setting soft threshold when comparing 2 networks in WGCNA?
wgcna coexpression cooccurrence coabundance network
updated 4.6 years ago by ▴ 660 • written 4.6 years ago by ▴ 40
1
vote
1
reply
984
views
Custom scoring for subnetworks in BioNet
bionet network
updated 5.9 years ago by ▴ 120 • written 5.9 years ago by ▴ 610
1
vote
2
replies
795
views
Additional high-scoring subnetworks in BioNet
bionet network
updated 5.9 years ago by ▴ 120 • written 5.9 years ago by ▴ 610
0
votes
2
replies
1.9k
views
WGCNA - Using real data for tutorial III
pathways wgcna network rna-seq
6.3 years ago hywel.williams • 0
5
votes
14
replies
3.4k
views
Connection Refused on port 9000 - RCytoscape
rcytoscape r network graphBAM object
updated 6.4 years ago by ★ 8.2k • written 6.4 years ago by ▴ 50
0
votes
0
replies
849
views
Job: Post-doc: Bioinformatics/Metabolic networks (Genoscope, near Paris, France)
network metabolism post-doc Job
6.5 years ago kbastard • 0
2
votes
5
replies
815
views
runing NetBenchmark on my own datasets
software error network
updated 6.6 years ago by ▴ 20 • written 6.6 years ago by ▴ 40
0
votes
0
replies
809
views
PSICQUIC: Direction of interaction
network protein interaction analysis
6.9 years ago kmezhoud ▴ 10
1
vote
2
replies
1.8k
views
cnetplot() - library(clusterProfiler)
clusterProfiler network
6.9 years ago cristina della beffa ▴ 30
0
votes
0
replies
1.1k
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
7.4 years ago Thomas.F.Hahn2 • 0
1
vote
7
replies
2.0k
views
Shiny app for RefNet, PSICQUIC: annotated protein/protein interactions
shiny network interactions
7.5 years ago pshannon ▴ 90
1
vote
2
replies
3.0k
views
Rearrange dendrogram to match merged modules in WGCNA?
wgcna dendrogram network hclust
updated 7.6 years ago by ▴ 150 • written 7.6 years ago by ▴ 180
2
votes
6
replies
3.7k
views
Error running TOMplot in WGCNA package
wgcna network
updated 7.6 years ago by ▴ 150 • written 7.7 years ago by ▴ 180
7
votes
1
reply
2.8k
views
Using RNA-Seq raw count data in Weighted Gene Co-Expression Network Analysis
rnaseq network limma
updated 7.7 years ago by 13k • written 7.7 years ago by ▴ 180
7
votes
4
replies
5.4k
views
WGCNA: overlapping colors in plotDendroAndColors?
wgcna plotDendroAndColors Network
updated 7.7 years ago by ★ 2.6k • written 7.7 years ago by ▴ 150
0
votes
0
replies
770
views
回复： XVector
Network Cancer IRanges XVector
7.7 years ago Hervé Pagès 15k
1
vote
1
reply
1.0k
views
WGCNA_ Eigengene and sample complications correlations
Network Network
updated 7.9 years ago by ★ 2.6k • written 7.9 years ago by ▴ 130
0
votes
1
reply
1.1k
views
WGCNA_ problem in creating scale free topology plot
Network Network
updated 7.9 years ago by 59k • written 7.9 years ago by ▴ 130
0
votes
0
replies
967
views
PostDoc opportunity
Pathways Network Pathways Network
8.0 years ago Guest User ★ 12k
0
votes
0
replies
1.6k
views
Pathview question
Network convert pathview Network convert pathview
8.1 years ago Luo Weijun ★ 1.5k
0
votes
2
replies
4.1k
views
WGCNA package
Network Network
updated 8.1 years ago by ★ 2.6k • written 8.1 years ago by ▴ 130
0
votes
0
replies
1.5k
views
IdeogramTrack and bigWig file errors in Gviz
GO Network rtracklayer CAMERA Gviz GO Network rtracklayer CAMERA Gviz
8.1 years ago Robert Ivanek ▴ 730
0
votes
0
replies
628
views
tudelft.CytoscapeRPC.CytoscapeRPCCallHandler: width is too small
Network Network
8.3 years ago Paul Shannon ▴ 750
0
votes
0
replies
757
views
RCytoscape: tudelft.CytoscapeRPC.CytoscapeRPCCallHandler: width is too small
SystemsBiology Network RCytoscape SystemsBiology Network RCytoscape
8.3 years ago Paul Shannon ▴ 750
0
votes
2
replies
2.8k
views
Gene filtering for RNA-seq data
Normalization GO Network HTSFilter DESeq2 Normalization GO Network HTSFilter DESeq2
updated 8.5 years ago by 36k • written 8.5 years ago by ★ 12k
0
votes
1
reply
1.2k
views
How to compare GO term lists and create matching network?
GO Network GUI Organism GO Network GUI Organism
updated 8.5 years ago by ▴ 750 • written 8.5 years ago by ▴ 160
0
votes
1
reply
1.0k
views
IdeogramTrack and bigWig file errors in Gviz
ChIPSeq GO Network rtracklayer CAMERA chipseq Gviz ChIPSeq GO Network rtracklayer Gviz
updated 8.6 years ago by 11k • written 8.6 years ago by ▴ 40
0
votes
0
replies
2.0k
views
8. CGHCall problems (Bernard North [guest]) : Bioconductor Digest, Vol 126, Issue 7
aCGH RNASeq ChIPSeq Proteomics Annotation Normalization GO Network Cancer ChipName probe
8.7 years ago Sarah JugurnauthLittle ▴ 20
0
votes
0
replies
797
views
Error converting SBML to graph Object using R SBML
Network graph convert rsbml Network graph convert rsbml
8.8 years ago Michael Lawrence 11k
0
votes
2
replies
925
views
limma for homemade microarray - question on NAs and multiple probes for one gene
Microarray Normalization GO Network Cancer probe limma Microarray Normalization GO probe
updated 8.8 years ago by 45k • written 8.9 years ago by ★ 2.6k
50 results • Page 1 of 1
Recent ...
Replies
Answer: how to make a group to apply the data to CAMERA by Gordon Smyth 45k
See the [limma User's Guide](https://www.bioconductor.org/packages/3.15/bioc/vignettes/limma/inst/doc/usersguide.pdf) for how to undertake …
Answer: Methods for removing unexpressed probes of Affymetrix Human Genome U219 Array by Guido Hooiveld ★ 3.2k
To add to the extensive discussion above, you may also want to have a look at the so-called UPC algorithm, available in the [package][1] `S…
Answer: How to best visualize multi-level transcriptomics experiment data? by Gordon Smyth 45k
> One way is to extract the differentially expressed genes with p.val = 0.05 and logFC = +/-1.0 I strongly recommend using FDR < 0.05 and…
Comment: Reading multiple data segments from FCS 3.0 file by Goldpanda • 0
Is there a way to combine the fcs files back into a single file as individual data segments?
Answer: different results in DESeq2 when comparing groups in two ways by zohreh.fazelan • 0
I appreciate your time and response.
Votes
Answer: Print EnhancedVolcano Plot as jpeg or similar in R Notebook
Comment: Print EnhancedVolcano Plot as jpeg or similar in R Notebook
A: coefficient not estimable (limma warning)
A: coefficient not estimable (limma warning)
A: conceptual question about FDR, FDR adjusted p-value and q-value
Awards • All
Prophet to johnmcma ▴ 10
Popular Question to Bogdan ▴ 640
Scholar to James W. MacDonald 59k
Popular Question to Rory Stark ★ 4.4k
Popular Question to Gyan Prakash Mishra • 0
Locations • All
WEHI, Melbourne, Australia, just now
Iran, 6 minutes ago
Zheng Zhou, 8 minutes ago
Japan, 9 minutes ago
Switzerland, 29 minutes ago
Traffic: 637 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