API for RCytoscape
Display and manipulate graphs in Cytoscape

Global functions
BBSOverride	Source code
CytoscapeConnection	Man page Source code
CytoscapeConnectionClass-class	Man page
CytoscapeWindow	Man page
CytoscapeWindowClass-class	Man page
addCyEdge	Man page
addCyEdge,CytoscapeWindowClass-method	Man page
addCyNode	Man page
addCyNode,CytoscapeWindowClass-method	Man page
addGraphToGraph	Man page
addGraphToGraph,CytoscapeWindowClass-method	Man page
chad.debug	Source code
check.cytoscape.plugin.version	Source code
classicGraphToNodePairTable	Source code
cleanup	Source code
clearMsg	Man page
clearMsg,CytoscapeConnectionClass-method	Man page
clearSelection	Man page
clearSelection,CytoscapeWindowClass-method	Man page
copyVisualStyle	Man page
copyVisualStyle,CytoscapeConnectionClass-method	Man page
createWindow	Man page
createWindow,CytoscapeWindowClass-method	Man page
createWindowFromSelection	Man page
createWindowFromSelection,CytoscapeWindowClass-method	Man page
cy2.edge.names	Man page Source code
deleteAllWindows	Man page
deleteAllWindows,CytoscapeConnectionClass-method	Man page
deleteEdgeAttribute	Man page
deleteEdgeAttribute,CytoscapeConnectionClass-method	Man page
deleteNodeAttribute	Man page
deleteNodeAttribute,CytoscapeConnectionClass-method	Man page
deleteSelectedEdges	Man page
deleteSelectedEdges,CytoscapeWindowClass-method	Man page
deleteSelectedNodes	Man page
deleteSelectedNodes,CytoscapeWindowClass-method	Man page
deleteWindow	Man page
deleteWindow,CytoscapeConnectionClass-method	Man page
demoSimpleGraph	Man page Source code
displayGraph	Man page
displayGraph,CytoscapeWindowClass-method	Man page
dockPanel	Man page
dockPanel,CytoscapeConnectionClass-method	Man page
eda	Man page Source code
eda.names	Man page Source code
existing.CytoscapeWindow	Man page Source code
fitContent	Man page
fitContent,CytoscapeWindowClass-method	Man page
fitSelectedContent	Man page
fitSelectedContent,CytoscapeWindowClass-method	Man page
floatPanel	Man page
floatPanel,CytoscapeConnectionClass-method	Man page
getAdjacentEdgeNames	Man page Source code
getAllEdgeAttributes	Man page
getAllEdgeAttributes,CytoscapeWindowClass-method	Man page
getAllEdges	Man page
getAllEdges,CytoscapeWindowClass-method	Man page
getAllNodeAttributes	Man page
getAllNodeAttributes,CytoscapeWindowClass-method	Man page
getAllNodes	Man page
getAllNodes,CytoscapeWindowClass-method	Man page
getArrowShapes	Man page
getArrowShapes,CytoscapeConnectionClass-method	Man page
getAttributeClassNames	Man page
getAttributeClassNames,CytoscapeConnectionClass-method	Man page
getCenter	Man page
getCenter,CytoscapeWindowClass-method	Man page
getDefaultBackgroundColor	Man page
getDefaultBackgroundColor,CytoscapeConnectionClass-method	Man page
getDefaultEdgeReverseSelectionColor	Man page
getDefaultEdgeReverseSelectionColor,CytoscapeConnectionClass-met	Man page
getDefaultEdgeSelectionColor	Man page
getDefaultEdgeSelectionColor,CytoscapeConnectionClass-method	Man page
getDefaultNodeReverseSelectionColor	Man page
getDefaultNodeReverseSelectionColor,CytoscapeConnectionClass-met	Man page
getDefaultNodeSelectionColor	Man page
getDefaultNodeSelectionColor,CytoscapeConnectionClass-method	Man page
getDirectlyModifiableVisualProperties	Man page
getDirectlyModifiableVisualProperties,CytoscapeConnectionClass-m	Man page
getEdgeAttribute	Man page
getEdgeAttribute,CytoscapeConnectionClass-method	Man page
getEdgeAttributeNames	Man page
getEdgeAttributeNames,CytoscapeConnectionClass-method	Man page
getEdgeCount	Man page
getEdgeCount,CytoscapeWindowClass-method	Man page
getFirstNeighbors	Man page
getFirstNeighbors,CytoscapeWindowClass-method	Man page
getGraph	Man page
getGraph,CytoscapeWindowClass-method	Man page
getGraphFromCyWindow	Man page
getGraphFromCyWindow,CytoscapeConnectionClass-method	Man page
getLayoutNameMapping	Man page
getLayoutNameMapping,CytoscapeConnectionClass-method	Man page
getLayoutNames	Man page
getLayoutNames,CytoscapeConnectionClass-method	Man page
getLayoutPropertyNames	Man page
getLayoutPropertyNames,CytoscapeConnectionClass-method	Man page
getLayoutPropertyType	Man page
getLayoutPropertyType,CytoscapeConnectionClass-method	Man page
getLayoutPropertyValue	Man page
getLayoutPropertyValue,CytoscapeConnectionClass-method	Man page
getLineStyles	Man page
getLineStyles,CytoscapeConnectionClass-method	Man page
getNodeAttribute	Man page
getNodeAttribute,CytoscapeConnectionClass-method	Man page
getNodeAttributeNames	Man page
getNodeAttributeNames,CytoscapeConnectionClass-method	Man page
getNodeCount	Man page
getNodeCount,CytoscapeWindowClass-method	Man page
getNodePosition	Man page
getNodePosition,CytoscapeWindowClass-method	Man page
getNodeShapes	Man page
getNodeShapes,CytoscapeConnectionClass-method	Man page
getNodeSize	Man page
getNodeSize,CytoscapeWindowClass-method	Man page
getNovelEdges	Source code
getSelectedEdgeCount	Man page
getSelectedEdgeCount,CytoscapeWindowClass-method	Man page
getSelectedEdges	Man page
getSelectedEdges,CytoscapeWindowClass-method	Man page
getSelectedNodeCount	Man page
getSelectedNodeCount,CytoscapeWindowClass-method	Man page
getSelectedNodes	Man page
getSelectedNodes,CytoscapeWindowClass-method	Man page
getViewCoordinates	Man page
getViewCoordinates,CytoscapeWindowClass-method	Man page
getVisualStyleNames	Man page
getVisualStyleNames,CytoscapeConnectionClass-method	Man page
getWindowCount	Man page
getWindowCount,CytoscapeConnectionClass-method	Man page
getWindowID	Man page
getWindowID,CytoscapeConnectionClass-method	Man page
getWindowList	Man page
getWindowList,CytoscapeConnectionClass-method	Man page
getZoom	Man page
getZoom,CytoscapeWindowClass-method	Man page
hexColorToInt	Source code
hideAllPanels	Man page
hideAllPanels,CytoscapeConnectionClass-method	Man page
hideNodes	Man page
hideNodes,CytoscapeWindowClass-method	Man page
hidePanel	Man page
hidePanel,CytoscapeConnectionClass-method	Man page
hideSelectedEdges	Man page
hideSelectedEdges,CytoscapeWindowClass-method	Man page
hideSelectedNodes	Man page
hideSelectedNodes,CytoscapeWindowClass-method	Man page
initEdgeAttribute	Man page Source code
initNodeAttribute	Man page Source code
invertEdgeSelection	Man page
invertEdgeSelection,CytoscapeWindowClass-method	Man page
invertNodeSelection	Man page
invertNodeSelection,CytoscapeWindowClass-method	Man page
is.classic.graph	Source code
is.multiGraph	Source code
layoutNetwork	Man page
layoutNetwork,CytoscapeWindowClass-method	Man page
lockNodeDimensions	Man page
lockNodeDimensions,CytoscapeConnectionClass-method	Man page
makeRandomGraph	Man page Source code
makeSimpleGraph	Man page Source code
msg	Man page
msg,CytoscapeConnectionClass-method	Man page
multiGraphToNodePairTable	Source code
new.CytoscapeWindow	Man page Source code
noa	Man page Source code
noa.names	Man page Source code
ping	Man page
ping,CytoscapeConnectionClass-method	Man page
pluginVersion	Man page
pluginVersion,CytoscapeConnectionClass-method	Man page
predictTimeToDisplayGraph	Man page
predictTimeToDisplayGraph,CytoscapeWindowClass-method	Man page
predictedDisplayGraphTime	Source code
printf	Source code
properlyInitializedEdgeAttribute	Source code
properlyInitializedNodeAttribute	Source code
raiseWindow	Man page
raiseWindow,CytoscapeConnectionClass-method	Man page
rcyEdgeNames	Source code
redraw	Man page
redraw,CytoscapeWindowClass-method	Man page
remove.redundancies.in.undirected.graph	Source code
remove.redundancies.in.undirected.graph.old	Source code
restoreLayout	Man page
restoreLayout,CytoscapeWindowClass-method	Man page
saveImage	Man page
saveImage,CytoscapeWindowClass-method	Man page
saveLayout	Man page
saveLayout,CytoscapeWindowClass-method	Man page
saveNetwork	Man page
saveNetwork,CytoscapeWindowClass-method	Man page
selectEdges	Man page
selectEdges,CytoscapeWindowClass-method	Man page
selectFirstNeighborsOfSelectedNodes	Man page
selectFirstNeighborsOfSelectedNodes,CytoscapeWindowClass-method	Man page
selectNodes	Man page
selectNodes,CytoscapeWindowClass-method	Man page
sendEdgeAttributesForGraph	Source code
sendEdges	Man page
sendEdges,CytoscapeWindowClass-method	Man page
sendNodeAttributesForGraph	Source code
sendNodes	Man page
sendNodes,CytoscapeWindowClass-method	Man page
set.node.or.edge.properties	Source code
setCenter	Man page
setCenter,CytoscapeWindowClass-method	Man page
setDefaultBackgroundColor	Man page
setDefaultBackgroundColor,CytoscapeConnectionClass-method	Man page
setDefaultEdgeColor	Man page
setDefaultEdgeColor,CytoscapeConnectionClass-method	Man page
setDefaultEdgeFontSize	Man page
setDefaultEdgeFontSize,CytoscapeConnectionClass-method	Man page
setDefaultEdgeLineWidth	Man page
setDefaultEdgeLineWidth,CytoscapeConnectionClass-method	Man page
setDefaultEdgeReverseSelectionColor	Man page
setDefaultEdgeReverseSelectionColor,CytoscapeConnectionClass-met	Man page
setDefaultEdgeSelectionColor	Man page
setDefaultEdgeSelectionColor,CytoscapeConnectionClass-method	Man page
setDefaultNodeBorderColor	Man page
setDefaultNodeBorderColor,CytoscapeConnectionClass-method	Man page
setDefaultNodeBorderWidth	Man page
setDefaultNodeBorderWidth,CytoscapeConnectionClass-method	Man page
setDefaultNodeColor	Man page
setDefaultNodeColor,CytoscapeConnectionClass-method	Man page
setDefaultNodeFontSize	Man page
setDefaultNodeFontSize,CytoscapeConnectionClass-method	Man page
setDefaultNodeLabelColor	Man page
setDefaultNodeLabelColor,CytoscapeConnectionClass-method	Man page
setDefaultNodeReverseSelectionColor	Man page
setDefaultNodeReverseSelectionColor,CytoscapeConnectionClass-met	Man page
setDefaultNodeSelectionColor	Man page
setDefaultNodeSelectionColor,CytoscapeConnectionClass-method	Man page
setDefaultNodeShape	Man page
setDefaultNodeShape,CytoscapeConnectionClass-method	Man page
setDefaultNodeSize	Man page
setDefaultNodeSize,CytoscapeConnectionClass-method	Man page
setEdgeAttributes	Man page
setEdgeAttributes,CytoscapeWindowClass-method	Man page
setEdgeAttributesDirect	Man page
setEdgeAttributesDirect,CytoscapeWindowClass-method	Man page
setEdgeColorDirect	Man page
setEdgeColorDirect,CytoscapeWindowClass-method	Man page
setEdgeColorRule	Man page
setEdgeColorRule,CytoscapeWindowClass-method	Man page
setEdgeFontSizeDirect	Man page
setEdgeFontSizeDirect,CytoscapeWindowClass-method	Man page
setEdgeLabelColorDirect	Man page
setEdgeLabelColorDirect,CytoscapeWindowClass-method	Man page
setEdgeLabelDirect	Man page
setEdgeLabelDirect,CytoscapeWindowClass-method	Man page
setEdgeLabelOpacityDirect	Man page
setEdgeLabelOpacityDirect,CytoscapeWindowClass-method	Man page
setEdgeLabelRule	Man page
setEdgeLabelRule,CytoscapeWindowClass-method	Man page
setEdgeLabelWidthDirect	Man page
setEdgeLabelWidthDirect,CytoscapeWindowClass-method	Man page
setEdgeLineStyleDirect	Man page
setEdgeLineStyleDirect,CytoscapeWindowClass-method	Man page
setEdgeLineStyleRule	Man page
setEdgeLineStyleRule,CytoscapeWindowClass-method	Man page
setEdgeLineWidthDirect	Man page
setEdgeLineWidthDirect,CytoscapeWindowClass-method	Man page
setEdgeLineWidthRule	Man page
setEdgeLineWidthRule,CytoscapeWindowClass-method	Man page
setEdgeOpacityDirect	Man page
setEdgeOpacityDirect,CytoscapeWindowClass-method	Man page
setEdgeOpacityRule	Man page
setEdgeOpacityRule,CytoscapeWindowClass-method	Man page
setEdgeSourceArrowColorDirect	Man page
setEdgeSourceArrowColorDirect,CytoscapeWindowClass-method	Man page
setEdgeSourceArrowColorRule	Man page
setEdgeSourceArrowColorRule,CytoscapeWindowClass-method	Man page
setEdgeSourceArrowOpacityDirect	Man page
setEdgeSourceArrowOpacityDirect,CytoscapeWindowClass-method	Man page
setEdgeSourceArrowRule	Man page
setEdgeSourceArrowRule,CytoscapeWindowClass-method	Man page
setEdgeSourceArrowShapeDirect	Man page
setEdgeSourceArrowShapeDirect,CytoscapeWindowClass-method	Man page
setEdgeTargetArrowColorDirect	Man page
setEdgeTargetArrowColorDirect,CytoscapeWindowClass-method	Man page
setEdgeTargetArrowColorRule	Man page
setEdgeTargetArrowColorRule,CytoscapeWindowClass-method	Man page
setEdgeTargetArrowOpacityDirect	Man page
setEdgeTargetArrowOpacityDirect,CytoscapeWindowClass-method	Man page
setEdgeTargetArrowRule	Man page
setEdgeTargetArrowRule,CytoscapeWindowClass-method	Man page
setEdgeTargetArrowShapeDirect	Man page
setEdgeTargetArrowShapeDirect,CytoscapeWindowClass-method	Man page
setEdgeTooltipDirect	Man page
setEdgeTooltipDirect,CytoscapeWindowClass-method	Man page
setEdgeTooltipRule	Man page
setEdgeTooltipRule,CytoscapeWindowClass-method	Man page
setGraph	Man page
setGraph,CytoscapeWindowClass-method	Man page
setLayoutProperties	Man page
setLayoutProperties,CytoscapeConnectionClass-method	Man page
setNodeAttributes	Man page
setNodeAttributes,CytoscapeWindowClass-method	Man page
setNodeAttributesDirect	Man page
setNodeAttributesDirect,CytoscapeWindowClass-method	Man page
setNodeBorderColorDirect	Man page
setNodeBorderColorDirect,CytoscapeWindowClass-method	Man page
setNodeBorderColorRule	Man page
setNodeBorderColorRule,CytoscapeWindowClass-method	Man page
setNodeBorderOpacityDirect	Man page
setNodeBorderOpacityDirect,CytoscapeWindowClass-method	Man page
setNodeBorderWidthDirect	Man page
setNodeBorderWidthDirect,CytoscapeWindowClass-method	Man page
setNodeBorderWidthRule	Man page
setNodeBorderWidthRule,CytoscapeWindowClass-method	Man page
setNodeColorDirect	Man page
setNodeColorDirect,CytoscapeWindowClass-method	Man page
setNodeColorRule	Man page
setNodeColorRule,CytoscapeWindowClass-method	Man page
setNodeFillOpacityDirect	Man page
setNodeFillOpacityDirect,CytoscapeWindowClass-method	Man page
setNodeFontSizeDirect	Man page
setNodeFontSizeDirect,CytoscapeWindowClass-method	Man page
setNodeHeightDirect	Man page
setNodeHeightDirect,CytoscapeWindowClass-method	Man page
setNodeImageDirect	Man page
setNodeImageDirect,CytoscapeWindowClass-method	Man page
setNodeLabelColorDirect	Man page
setNodeLabelColorDirect,CytoscapeWindowClass-method	Man page
setNodeLabelDirect	Man page
setNodeLabelDirect,CytoscapeWindowClass-method	Man page
setNodeLabelOpacityDirect	Man page
setNodeLabelOpacityDirect,CytoscapeWindowClass-method	Man page
setNodeLabelRule	Man page
setNodeLabelRule,CytoscapeWindowClass-method	Man page
setNodeOpacityDirect	Man page
setNodeOpacityDirect,CytoscapeWindowClass-method	Man page
setNodeOpacityRule	Man page
setNodeOpacityRule,CytoscapeWindowClass-method	Man page
setNodePosition	Man page
setNodePosition,CytoscapeWindowClass-method	Man page
setNodeShapeDirect	Man page
setNodeShapeDirect,CytoscapeWindowClass-method	Man page
setNodeShapeRule	Man page
setNodeShapeRule,CytoscapeWindowClass-method	Man page
setNodeSizeDirect	Man page
setNodeSizeDirect,CytoscapeWindowClass-method	Man page
setNodeSizeRule	Man page
setNodeSizeRule,CytoscapeWindowClass-method	Man page
setNodeTooltipRule	Man page
setNodeTooltipRule,CytoscapeWindowClass-method	Man page
setNodeWidthDirect	Man page
setNodeWidthDirect,CytoscapeWindowClass-method	Man page
setTooltipDismissDelay	Man page
setTooltipDismissDelay,CytoscapeConnectionClass-method	Man page
setTooltipInitialDelay	Man page
setTooltipInitialDelay,CytoscapeConnectionClass-method	Man page
setVisualStyle	Man page
setVisualStyle,CytoscapeConnectionClass-method	Man page
setWindowSize	Man page
setWindowSize,CytoscapeWindowClass-method	Man page
setZoom	Man page
setZoom,CytoscapeWindowClass-method	Man page
sfn	Man page
sfn,CytoscapeWindowClass-method	Man page
showGraphicsDetails	Man page
showGraphicsDetails,CytoscapeConnectionClass-method	Man page
test	Source code
unhideAll	Man page
unhideAll,CytoscapeWindowClass-method	Man page
valid.graph	Source code
valid.title	Source code
valid.uri	Source code
valid.window.id	Source code
validCyWin	Source code