Showing : RCy3 • reset
1
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KEGGgraph result difference
igraph KEGGgraph RCy3 GraphNEL
12 weeks ago • updated 7 weeks ago Arindam ▴ 80
2
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2
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715
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Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(paste("networks", net.suid, "tables", tbl, sep = "/"), : object 're…
RCy3
7 months ago • updated 6 months ago Matthew Thornton ▴ 380
1
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1
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439
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Going back to default settings in RCy3
Cytoscape RCy3 RCy
updated 11 months ago by ▴ 30 • written 11 months ago by ▴ 90
1
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1
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1.1k
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How to select subnetworks, or regions, with a certain number of nodes or edges with RCy3
Network RCy3
updated 11 months ago by ▴ 30 • written 11 months ago by ▴ 90
1
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1
reply
610
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Cytohubba in RCY3
RCy3 Cytohubba
updated 11 months ago by ▴ 30 • written 11 months ago by ▴ 10
3
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7
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1.7k
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"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
19 months ago Ortega-C ▴ 10
1
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1
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874
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how to call an app from Cytoscape using R?
RCy3
updated 22 months ago by ▴ 30 • written 23 months ago by ▴ 40
2
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3
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1.6k
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Aggregating genes from multiple GSE's, ranking them, then building a PPI network.
GEOquery CancerData limma RCy3 CancerInSilico
updated 3.1 years ago by ★ 13k • written 3.1 years ago by ▴ 50
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2
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1.1k
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RCy3 Cytoscape package question
rcy3
updated 4.0 years ago by ▴ 30 • written 4.9 years ago by ▴ 10
1
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3
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1.5k
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loadTableData function from RCy3 returns "Failed to load data: Provided key columns do not contain any matches"
Cytoscape Pathways Wikipathways rWikiPathways RCy3
4.0 years ago Emilia ▴ 40
0
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1
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898
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Importing Newick trees in Cytoscape by conversion to igraph via RCy3
RCy3 Cytoscape R Newick Bioconductor
updated 4.0 years ago by ▴ 30 • written 4.4 years ago by • 0
3
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4
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1.6k
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Exporting graphNEL into Cytoscape using RCy3 fails with 'arguments imply differing number of rows'
RCy3 Cytoscape Rgraphviz GOstats
5.6 years ago Matthew Thornton ▴ 380
12 results • Page 1 of 1
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Comment: Running multiple KNN queries in parallel by SamGG ▴ 360
Thank you for your detailed answer, I appreciate it and your work.
Answer: Running multiple KNN queries in parallel by Aaron Lun ★ 28k
That is correct - you can't pass the prebuilt objects to different processes. Maybe `MulticoreParam()` might work on POSIX systems but I'm …
Answer: RSubread output significantly different from bash Subread output by Gordon Smyth 52k
The difference (as ATpoint has correctly pointed out) is that Rsubread::featureCounts counts multi-mapping reads by default whereas the com…
Answer: Deseq2 Error in solve.default(qr.R(qrx)) : 'a' (1 x 0) must be square by Michael Love 43k
I would check the rank of your model matrix, and perhaps meet with a local statistician who can help you create an appropriate design matri…
Comment: sva: get a sv for RIN scores by gabriel.hoffman ▴ 170
Agreed. I'll add that with small sample size, a covariate can explain some fraction of expression variation even under the null.
Votes
Answer: Running multiple KNN queries in parallel
Answer: Running multiple KNN queries in parallel
Answer: RSubread output significantly different from bash Subread output
Answer: RSubread output significantly different from bash Subread output
Answer: How to annotate a limma Elist raw class object with an annotation file
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