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Cytoscape
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563
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Going back to default settings in RCy3
Cytoscape
RCy3
RCy
updated 16 months ago by
alex.pico
▴ 30 • written 16 months ago by
David R
▴ 90
3
votes
7
replies
2.1k
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
24 months ago
Ortega-C
▴ 10
0
votes
0
replies
1.4k
views
WGCNA Heatmap and Export to Cytoscape Not Working
Cytoscape
Heatmap
heatmaps
WGCNA
2.3 years ago
gianni.drm
• 0
0
votes
1
reply
983
views
Importing Newick trees in Cytoscape by conversion to igraph via RCy3
RCy3
Cytoscape
R
Newick
Bioconductor
updated 4.4 years ago by
alex.pico
▴ 30 • written 4.8 years ago by
ellisjc
• 0
3
votes
4
replies
1.8k
views
Exporting graphNEL into Cytoscape using RCy3 fails with 'arguments imply differing number of rows'
RCy3
Cytoscape
Rgraphviz
GOstats
6.0 years ago
Matthew Thornton
▴ 380
1
vote
0
replies
2.3k
views
Exploring upstream regulators (transcription factors, drugs, etc) of transcripts in R
microarray
bioconductor
cytoscape
mapfromtranscripts
6.6 years ago
lm795
▴ 10
0
votes
0
replies
1.4k
views
Help with generating network from gene expression data
gene expression
network
cytoscape
7.3 years ago
torgeirous
• 0
6
votes
8
replies
10k
views
WGCNA export to cytoscape
wgcna
cytoscape
updated 7.3 years ago by
harelarik
▴ 60 • written 8.0 years ago by
2323982403
▴ 60
0
votes
1
reply
1.6k
views
WGNA export to external software
WGCNA
network visualization
external software
cytoscape
updated 7.6 years ago by
Peter Langfelder
★ 3.0k • written 7.6 years ago by
je.maxfield
• 0
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Comment: EuroBioC2023 abstract submission is open!
by
arden
• 0
Woohoo! Abstract submission for EuroBioC2023 is open! Time to dust off my research and get those submissions ready. Hope to see some awesom…
Comment: Gene Ontology (GO) Analysis
by
GA
▴ 10
Thank you!
Comment: DESEQ2 - Correctly altering log2foldchange when switching comparison direction (
by
sk
• 0
If I use factor to create the Condition_SCR_vs_WT coef, then the other chefs would be Condition_KD1_vs_WT and Condition_KD2_vs_WT, but I ne…
Comment: How to load scRNA-seq data from GEO
by
petergrahamclark
• 0
the paper I'm working off suggests removing all cells where the UMI is less than 2000. I assume we don't have enough data for umi counts. c…
Comment: How to load scRNA-seq data from GEO
by
Gordon Smyth
52k
I suggest you use readMM() as advised by James, but then do a massive amount of cell filtering before doing any other conversions or creati…
Votes
Comment: How to load scRNA-seq data from GEO
limma correction for tumor purity
limma correction for tumor purity
Answer: limma correction for tumor purity
Answer: limma correction for tumor purity
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