Showing : Cytoscape • reset
3
votes
4
replies
1.4k
views
Exporting graphNEL into Cytoscape using RCy3 fails with 'arguments imply differing number of rows'
RCy3 Cytoscape Rgraphviz GOstats
5.0 years ago • updated 4.9 years ago Matthew Thornton ▴ 350
0
votes
1
reply
1.2k
views
WGNA export to external software
WGCNA network visualization external software cytoscape
updated 6.6 years ago by ★ 3.0k • written 6.6 years ago by • 0
6
votes
8
replies
8.3k
views
WGCNA export to cytoscape
wgcna cytoscape
updated 6.3 years ago by ▴ 60 • written 7.0 years ago by ▴ 60
1
vote
1
reply
267
views
Going back to default settings in RCy3
Cytoscape RCy3 RCy
updated 3 months ago by ▴ 20 • written 4 months ago by ▴ 90
3
votes
7
replies
1.2k
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
11 months ago Ortega-C ▴ 10
0
votes
1
reply
731
views
Importing Newick trees in Cytoscape by conversion to igraph via RCy3
RCy3 Cytoscape R Newick Bioconductor
updated 3.4 years ago by ▴ 20 • written 3.8 years ago by • 0
0
votes
0
replies
808
views
WGCNA Heatmap and Export to Cytoscape Not Working
Cytoscape Heatmap heatmaps WGCNA
14 months ago gianni.drm • 0
1
vote
0
replies
1.7k
views
Exploring upstream regulators (transcription factors, drugs, etc) of transcripts in R
microarray bioconductor cytoscape mapfromtranscripts
5.5 years ago lm795 ▴ 10
0
votes
0
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1.0k
views
Help with generating network from gene expression data
gene expression network cytoscape
6.3 years ago torgeirous • 0
9 results • Page 1 of 1
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Answer: Dominance Index for Shotgun Metagenomics Data by Leo Lahti ▴ 40
1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…
Comment: Math expression in shapeCustom legend in EnhancedVolcano by pl23 • 0
Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
Answer: PCA plot suggestions by Michael Love 41k
For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Votes
Answer: Dominance Index for Shotgun Metagenomics Data
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
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