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Cytoscape
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Going back to default settings in RCy3
Cytoscape
RCy3
RCy
updated 12 weeks ago by
alex.pico
▴ 20 • written 3 months ago by
David R
▴ 90
3
votes
7
replies
1.1k
views
"Degree values are the same for all nodes in a network imported from WGCNA to Cytoscape using RCy3. Seeking insights and potential causes."
Cytoscape
RCy3
Networkvisualization
WGCNA
10 months ago
Ortega-C
▴ 10
0
votes
0
replies
764
views
WGCNA Heatmap and Export to Cytoscape Not Working
Cytoscape
Heatmap
heatmaps
WGCNA
13 months ago
gianni.drm
• 0
0
votes
1
reply
706
views
Importing Newick trees in Cytoscape by conversion to igraph via RCy3
RCy3
Cytoscape
R
Newick
Bioconductor
updated 3.3 years ago by
alex.pico
▴ 20 • written 3.7 years ago by
ellisjc
• 0
3
votes
4
replies
1.3k
views
Exporting graphNEL into Cytoscape using RCy3 fails with 'arguments imply differing number of rows'
RCy3
Cytoscape
Rgraphviz
GOstats
4.9 years ago
Matthew Thornton
▴ 350
1
vote
0
replies
1.6k
views
Exploring upstream regulators (transcription factors, drugs, etc) of transcripts in R
microarray
bioconductor
cytoscape
mapfromtranscripts
5.4 years ago
lm795
▴ 10
0
votes
0
replies
1.0k
views
Help with generating network from gene expression data
gene expression
network
cytoscape
6.2 years ago
torgeirous
• 0
0
votes
1
reply
1.2k
views
WGNA export to external software
WGCNA
network visualization
external software
cytoscape
updated 6.5 years ago by
Peter Langfelder
★ 2.9k • written 6.5 years ago by
je.maxfield
• 0
6
votes
8
replies
8.1k
views
WGCNA export to cytoscape
wgcna
cytoscape
updated 6.2 years ago by
harelarik
▴ 60 • written 6.9 years ago by
2323982403
▴ 60
9 results • Page
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Answer: New genes that did not exist in dds object suddenly showed up after degPatterns
by
Michael Love
41k
May be documented by the software you are using? https://github.com/lpantano/DEGreport
Answer: Doing comparison of RNA-seq data using Deseq2
by
Michael Love
41k
Take a look at our workflow, this starts from a beginner's level. You could export from Excel using CSV or TSV, then read into R. htt…
Answer: WGCNA: analysis of complex trait associations with regressions
by
James W. MacDonald
65k
This support site is meant to help people with questions about Bioconductor packages (WGCNA is not a Bioconductor package). You might try o…
Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 10
Yes that is correct
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
by
Gordon Smyth
50k
It is the minimum group size rather than the total number of samples that is relevant. `min.prop` is more a biological parameter rather th…
Votes
A: Error object and replacement value dimnames differ, when changing column names o
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
Comment: What benchmark should I use for setting the EdgeR filterByExpr min.count paramet
DESeq2 normalization vs VST vs rlog
Answer: DESeq2 "Contrast" option
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