Showing : rcy3 • reset
1
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812
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KEGGgraph result difference
igraph KEGGgraph RCy3 GraphNEL
14 months ago • updated 12 months ago Arindam ▴ 80
2
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2
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1.2k
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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
18 months ago Matthew Thornton ▴ 380
1
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1
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665
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Going back to default settings in RCy3
Cytoscape RCy3 RCy
updated 22 months ago by ▴ 30 • written 22 months ago by ▴ 90
1
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1
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1.5k
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How to select subnetworks, or regions, with a certain number of nodes or edges with RCy3
Network RCy3
updated 22 months ago by ▴ 30 • written 23 months ago by ▴ 90
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1
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1.2k
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Cytohubba in RCY3
RCy3 Cytohubba
updated 22 months ago by ▴ 30 • written 22 months ago by ▴ 10
3
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7
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2.4k
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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
2.5 years ago Ortega-C ▴ 10
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1
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1.2k
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how to call an app from Cytoscape using R?
RCy3
updated 2.8 years ago by ▴ 30 • written 2.8 years ago by ▴ 40
2
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3
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2.2k
views
Aggregating genes from multiple GSE's, ranking them, then building a PPI network.
GEOquery CancerData limma RCy3 CancerInSilico
updated 4.0 years ago by ★ 13k • written 4.0 years ago by ▴ 50
1
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2
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1.4k
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RCy3 Cytoscape package question
rcy3
updated 4.9 years ago by ▴ 30 • written 5.8 years ago by ▴ 10
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3
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1.9k
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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
4.9 years ago Emilia ▴ 40
0
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1
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1.1k
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Importing Newick trees in Cytoscape by conversion to igraph via RCy3
RCy3 Cytoscape R Newick Bioconductor
updated 4.9 years ago by ▴ 30 • written 5.3 years ago by • 0
3
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4
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2.0k
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Exporting graphNEL into Cytoscape using RCy3 fails with 'arguments imply differing number of rows'
RCy3 Cytoscape Rgraphviz GOstats
6.5 years ago Matthew Thornton ▴ 380
12 results • Page 1 of 1
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Answer: After running samtools, the featureCounts command crashed. by Kevin Blighe ★ 4.0k
Hi Rui Tang, The "buffer overflow detected" error in featureCounts usually stems from a corrupted or malformed GTF file, often due to tr…
Answer: Problem with the TMB plot by Kevin Blighe ★ 4.0k
Hi bioinffun, The linear TMB plot with no clustering suggests your variant calls may lack sample-specific discrimination, likely due to …
Answer: gene Set with high AUC score but no cells assigned to cell type by Kevin Blighe ★ 4.0k
Hi, You have correctly identified the issue: AUCell's automatic threshold selection is conservative by design, aiming for specificity to…
Answer: featureCounts -L: high unassigned:mapq fraction by Kevin Blighe ★ 4.0k
Hi Katarzyna, The discrepancy arises because your samtools stats were restricted to genic regions only, where alignments are typically o…
Answer: Streamlining the computing time for MiloDE p-value correction in large dataset? by Kevin Blighe ★ 4.0k
Hi Joseph, I agree with ATpoint's suggestion that pseudobulk aggregation (e.g., via aggregateData in scran or similar) would likely be f…
Votes
Answer: DESeq2 design for haplotype MPRA
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Failure to download resources (MeSHDb) from AnnotationHub
Answer: Suppress warning in RHDF5 write
Answer: Suppress warning in RHDF5 write
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