Standard Cytoscape JSON Models

This page lists the accepted JSON representations of the Cytoscape Application Data Model. Using these models when Cytoscape objects are returned from automation functions or commands constitutes a best practice.

CyIdentifiable.java

SUIDFactory.java

CyDisposable.java

CyNode.java

CyNode as SUID List

[
   63,
   ...
]

CyNode as Single Object

{
  "data": {
    "id": 63,
    "SUID": 63,
    "shared name": "Node 1",
    "name": "Node 1",
    "selected": false,
    "int_column": 1
  }
}

CyEdge.java

CyEdge as SUID List

[
   83,
   ...
]

CyEdge as Single Object

{
  "data": {
    "source": 62,
    "target": 63,
    "SUID": 83,
    "shared name": "Node 2 (interacts with) Node 1",
    "shared interaction": "interacts with",
    "name": "Node 2 (interacts with) Node 1",
    "selected": false,
    "interaction": "interacts with"
  }
}

CyNetwork.java

CyNetwork as SUID List

[
   52,
   ...
]

CyNetwork as named SUID List

[
  {
    "name": "Network",
    "SUID": 52
  },
  ...
]

CyNetwork as cytoscape.js

See cytoscape.js

CyNetworkFactory.java

CyNetworkManager.java

CyNetworkTableManager.java

CyTable.java

[
  ...
  {
    "SUID": 54,
    "title": "Network default network",
    "public": true,
    "mutable": "PERMANENTLY_IMMUTABLE",
    "primaryKey": "SUID",
    "rows": [
      {
        "shared name": "Network",
        "name": "Network",
        "SUID": 52,
        "__Annotations": [
          ""
        ],
        "selected": true
      }
    ]
  },
  ...
]

CyRow.java

[
  ...
  {
    "SUID": 63,
    "shared name": "Node 1",
    "name": "Node 1",
    "selected": true,
    "int_column": 1
  },
  ...
]

CyColumn.java

CyTableFactory.java

CyTableManager.java

CyTableMetadata.java

CyTableUtil.java

SavePolicy.java

VirtualColumnInfo.java