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## Preliminaries
bbop-js provides a simple json format for representing graphs (akin to gml etc). See [graphs](https://github.com/kltm/bbop-js/wiki/Graph) for details, or contact @kltm.
Within the s…
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Is there a way to show elements present in a selected node's neighborhood if they were hidden before ? I tried many approaches using the .neighborhood() function but none of them seem to work. Further…
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In version 2.3.1, if I add some elements to the graph and then do
```
cy.load(cy.json()['elements'])
```
the positions of the nodes are not loaded and instead a grid layout is applied. I was loading…
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A `ConcurrentModificationException` error occurs when importing a JSON Graph format. The user will see a message popup indicating a "null" after importing.
The stacktrace reported is:
```
java.util.…
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Uploading a network to Cytoscape fails when there is a node/edge attribute with doubles, but the first occurence(s) are whole numbers (even when their storage mode is not "integer").
Here is a short …
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When I search for a term, like:
http://kato.crbs.ucsd.edu:9000/scigraph/vocabulary/id/HP:0000458
i would like to see equivalence classes and external references.
in this case, there's an xref to UMLS…
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This is definitely an enhancement. I want to request the ability to access all of the information you place in the report HTML file perhaps in some JSON, YAML, or heck even XML format. If we could pro…
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I see GeneMANIA chart data, It has all hard coded co-ordinates. Is there and algorithm to get those coordinates by an algorithm?
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See #294, #296.
Re-implement the D3 version of the ontology overview in Cytoscape.JS (Cyto) and in Javascript Infovis Toolkit (JIT). See how long it takes and how much it hurts. Compare the performan…