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rcy3
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reset
1
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233
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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
1
vote
1
reply
784
views
How to select subnetworks, or regions, with a certain number of nodes or edges with RCy3
Network
RCy3
updated 12 weeks ago by
alex.pico
▴ 20 • written 3 months ago by
David R
▴ 90
1
vote
1
reply
248
views
Cytohubba in RCY3
RCy3
Cytohubba
updated 12 weeks ago by
alex.pico
▴ 20 • written 3 months ago by
jzhan067
▴ 10
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
1
vote
1
reply
550
views
how to call an app from Cytoscape using R?
RCy3
updated 14 months ago by
alex.pico
▴ 20 • written 14 months ago by
adR
▴ 30
2
votes
3
replies
1.2k
views
Aggregating genes from multiple GSE's, ranking them, then building a PPI network.
GEOquery
CancerData
limma
RCy3
CancerInSilico
updated 2.4 years ago by
Steve Lianoglou
★ 13k • written 2.4 years ago by
Caitlin
▴ 50
1
vote
2
replies
830
views
RCy3 Cytoscape package question
rcy3
updated 3.3 years ago by
alex.pico
▴ 20 • written 4.2 years ago by
hanna226613
▴ 10
1
vote
3
replies
1.2k
views
loadTableData function from RCy3 returns "Failed to load data: Provided key columns do not contain any matches"
Cytoscape
Pathways
Wikipathways
rWikiPathways
RCy3
3.3 years ago
Emilia
▴ 30
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
10 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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