| Name | Description | Type | Package | Framework |
| AbstractGraphReader | Class | cytoscape.data.readers | CytoScape | |
| BookmarkReader | Class | cytoscape.data.readers | CytoScape | |
| CyAttributesReader | Class | cytoscape.data.readers | CytoScape | |
| CytoscapeSessionReader | Reader to load CYtoscape Session file (. | Class | cytoscape.data.readers | CytoScape |
| EqnAttrTracker | Constructor SummaryEqnAttrTracker()Methods inherited from class java. | Class | cytoscape.data.readers | CytoScape |
| GMLException | Exception for GML Reader. | Class | cytoscape.data.readers | CytoScape |
| GMLNode | This class represents a GMLNode. | Class | cytoscape.data.readers | CytoScape |
| GMLParser | The purpose of this class is to translate GML into an object tree, and print out an object tree into GML | Class | cytoscape.data.readers | CytoScape |
| GMLReader | This class is responsible for converting a gml object tree into cytoscape objects New features to the current version: 1. | Class | cytoscape.data.readers | CytoScape |
| GMLTag | enum GMLTagextends Enum | Class | cytoscape.data.readers | CytoScape |
| GMLTree | This class wraps around GMLNode and provides various methods for constructing a tree structure given other data. | Class | cytoscape.data.readers | CytoScape |
| GMLWriter | The purpse of this class is to translate cytoscape data structures into a gml object tree, we can then use the gml parser to write this tree out into a | Class | cytoscape.data.readers | CytoScape |
| GraphReader | Interface for Reading in Cytoscape Graphs. | Interface | cytoscape.data.readers | CytoScape |
| InteractionsReader | Reader for graphs in the interactions file format. | Class | cytoscape.data.readers | CytoScape |
| KeyValue | Key and Value pair in GML file. | Class | cytoscape.data.readers | CytoScape |
| MetadataEntries | enum MetadataEntriesextends Enum | Class | cytoscape.data.readers | CytoScape |
| MetadataParser | Manipulates network metadata for loading and saving. | Class | cytoscape.data.readers | CytoScape |
| NestedNetworkReader | Special interface for Graph readers which read nested networks from a file. | Interface | cytoscape.data.readers | CytoScape |
| NNFParser | Parser for NNF files. | Class | cytoscape.data.readers | CytoScape |
| NNFReader | Graph file reader for NNF files. | Class | cytoscape.data.readers | CytoScape |
| TextFileReader | Class | cytoscape.data.readers | CytoScape | |
| TextHttpReader | Class | cytoscape.data.readers | CytoScape | |
| TextJarReader | Class | cytoscape.data.readers | CytoScape | |
| VisualStyleBuilder | Based on the graph/node/edge view information, build new Visual Style. | Class | cytoscape.data.readers | CytoScape |
| XGMMLException | Exception for XGMML Reader. | Class | cytoscape.data.readers | CytoScape |
| XGMMLReader | This version is Metanode-compatible. | Class | cytoscape.data.readers | CytoScape |