RCytoscape: Display and manipulate graphs in Cytoscape
Version 1.26.0

Interactvive viewing and exploration of graphs, connecting R to Cytoscape.

Browse man pages Browse package API and functions Browse package files

AuthorPaul Shannon
Bioconductor views GraphAndNetwork ThirdPartyClient Visualization
Date of publicationNone
MaintainerPaul Shannon <pshannon@systemsbiology.org>
LicenseGPL-2
Version1.26.0
URL http://rcytoscape.systemsbiology.net
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("RCytoscape")

Man pages

addCyEdge: addCyEdge
addCyNode: addCyNode
addGraphToGraph: addGraphToGraph
clearMsg: clearMsg
clearSelection: clearSelection
copyVisualStyle: copyVisualStyle
createWindow: createWindow
createWindowFromSelection: createWindowFromSelection
cy2.edge.names: cy2.edge.names
CytoscapeConnection: CytoscapeConnection
CytoscapeConnectionClass-class: Class "CytoscapeConnectionClass"
CytoscapeWindow: CytoscapeWindow
CytoscapeWindowClass-class: Class "CytoscapeWindowClass"
deleteAllWindows: deleteAllWindows
deleteEdgeAttribute: deleteEdgeAttribute
deleteNodeAttribute: deleteNodeAttribute
deleteSelectedEdges: deleteSelectedEdges
deleteSelectedNodes: deleteSelectedNodes
deleteWindow: deleteWindow
demoSimpleGraph: demoSimpleGraph
displayGraph: displayGraph
dockPanel: dockPanel
eda: eda
eda.names: eda.names
existing.CytoscapeWindow: existing.CytoscapeWindow
fitContent: fitContent
fitSelectedContent: fitSelectedContent
floatPanel: floatPanel
getAdjacentEdgeNames: getAdjacentEdgeNames
getAllEdgeAttributes: getAllEdgeAttributes
getAllEdges: getAllEdges
getAllNodeAttributes: getAllNodeAttributes
getAllNodes: getAllNodes
getArrowShapes: getArrowShapes
getAttributeClassNames: getAttributeClassNames
getCenter: getCenter
getDefaultBackgroundColor: getDefaultBackgroundColor
getDefaultEdgeReverseSelectionColor: getDefaultEdgeReverseSelectionColor
getDefaultEdgeSelectionColor: getDefaultEdgeSelectionColor
getDefaultNodeReverseSelectionColor: getDefaultNodeReverseSelectionColor
getDefaultNodeSelectionColor: getDefaultNodeSelectionColor
getDirectlyModifiableVisualProperties: getDirectlyModifiableVisualProperties
getEdgeAttribute: getEdgeAttribute
getEdgeAttributeNames: getEdgeAttributeNames
getEdgeCount: getEdgeCount
getFirstNeighbors: getFirstNeighbors
getGraph: getGraph
getGraphFromCyWindow: getGraphFromCyWindow
getLayoutNameMapping: getLayoutNameMapping
getLayoutNames: getLayoutNames
getLayoutPropertyNames: getLayoutPropertyNames
getLayoutPropertyType: getLayoutPropertyType
getLayoutPropertyValue: getLayoutPropertyValue
getLineStyles: getLineStyles
getNodeAttribute: getNodeAttribute
getNodeAttributeNames: getNodeAttributeNames
getNodeCount: getNodeCount
getNodePosition: getNodePosition
getNodeShapes: getNodeShapes
getNodeSize: getNodeSize
getSelectedEdgeCount: getSelectedEdgeCount
getSelectedEdges: getSelectedEdges
getSelectedNodeCount: getSelectedNodeCount
getSelectedNodes: getSelectedNodes
getViewCoordinates: getViewCoordinates
getVisualStyleNames: getVisualStyleNames
getWindowCount: getWindowCount
getWindowID: getWindowID
getWindowList: getWindowList
getZoom: getZoom
hideAllPanels: hideAllPanels
hideNodes: hideNodes
hidePanel: hidePanel
hideSelectedEdges: hideSelectedEdges
hideSelectedNodes: hideSelectedNodes
initEdgeAttribute: initEdgeAttribute
initNodeAttribute: initNodeAttribute
invertEdgeSelection: invertEdgeSelection
invertNodeSelection: invertNodeSelection
layoutNetwork: layoutNetwork
lockNodeDimensions: lockNodeDimensions
makeRandomGraph: makeRandomGraph
makeSimpleGraph: makeSimpleGraph
msg: msg
new.CytoscapeWindow: new.CytoscapeWindow
noa: noa
noa.names: noa.names
ping: ping
pluginVersion: pluginVersion
predictTimeToDisplayGraph: predictTimeToDisplayGraph
raiseWindow: raiseWindow
redraw: redraw
restoreLayout: restoreLayout
saveImage: saveImage
saveLayout: saveLayout
saveNetwork: saveNetwork
selectEdges: selectEdges
selectFirstNeighborsOfSelectedNodes: selectFirstNeighborsOfSelectedNodes
selectNodes: selectNodes
sendEdges: sendEdges
sendNodes: sendNodes
setCenter: setCenter
setDefaultBackgroundColor: setDefaultBackgroundColor
setDefaultEdgeColor: setDefaultEdgeColor
setDefaultEdgeFontSize: setDefaultEdgeFontSize
setDefaultEdgeLineWidth: setDefaultEdgeLineWidth
setDefaultEdgeReverseSelectionColor: setDefaultEdgeReverseSelectionColor
setDefaultEdgeSelectionColor: setDefaultEdgeSelectionColor
setDefaultNodeBorderColor: setDefaultNodeBorderColor
setDefaultNodeBorderWidth: setDefaultNodeBorderWidth
setDefaultNodeColor: setDefaultNodeColor
setDefaultNodeFontSize: setDefaultNodeFontSize
setDefaultNodeLabelColor: setDefaultNodeLabelColor
setDefaultNodeReverseSelectionColor: setDefaultNodeReverseSelectionColor
setDefaultNodeSelectionColor: setDefaultNodeSelectionColor
setDefaultNodeShape: setDefaultNodeShape
setDefaultNodeSize: setDefaultNodeSize
setEdgeAttributes: setEdgeAttributes
setEdgeAttributesDirect: setEdgeAttributesDirect
setEdgeColorDirect: setEdgeColorDirect
setEdgeColorRule: setEdgeColorRule
setEdgeFontSizeDirect: setEdgeFontSizeDirect
setEdgeLabelColorDirect: setEdgeLabelColorDirect
setEdgeLabelDirect: setEdgeLabelDirect
setEdgeLabelOpacityDirect: setEdgeLabelOpacityDirect
setEdgeLabelRule: setEdgeLabelRule
setEdgeLabelWidthDirect: setEdgeLabelWidthDirect
setEdgeLineStyleDirect: setEdgeLineStyleDirect
setEdgeLineStyleRule: specify the line styles to be used in drawing edges
setEdgeLineWidthDirect: setEdgeLineWidthDirect
setEdgeLineWidthRule: setEdgeLineWidthRule
setEdgeOpacityDirect: setEdgeOpacityDirect
setEdgeOpacityRule: setEdgeOpacityRule
setEdgeSourceArrowColorDirect: setEdgeSourceArrowColorDirect
setEdgeSourceArrowColorRule: Specify Rule for the Source Arrow Color
setEdgeSourceArrowOpacityDirect: setEdgeSourceArrowOpacityDirect
setEdgeSourceArrowRule: specify the arrow types to be used at the end of an edge, at...
setEdgeSourceArrowShapeDirect: setEdgeSourceArrowShapeDirect
setEdgeTargetArrowColorDirect: setEdgeTargetArrowColorDirect
setEdgeTargetArrowColorRule: Specify Rule for the Target Arrow Color
setEdgeTargetArrowOpacityDirect: setEdgeTargetArrowOpacityDirect
setEdgeTargetArrowRule: specify the arrow types to be used at the end of an edge, at...
setEdgeTargetArrowShapeDirect: setEdgeTargetArrowShapeDirect
setEdgeTooltipDirect: setEdgeTooltipDirect
setEdgeTooltipRule: setEdgeTooltipRule
setGraph: setGraph
setLayoutProperties: setLayoutProperties
setNodeAttributes: setNodeAttributes
setNodeAttributesDirect: setNodeAttributesDirect
setNodeBorderColorDirect: setNodeBorderColorDirect
setNodeBorderColorRule: setNodeBorderColorRule
setNodeBorderOpacityDirect: setNodeBorderOpacityDirect
setNodeBorderWidthDirect: setNodeBorderWidthDirect
setNodeBorderWidthRule: setNodeBorderWidthRule
setNodeColorDirect: setNodeColorDirect
setNodeColorRule: setNodeColorRule
setNodeFillOpacityDirect: setNodeFillOpacityDirect
setNodeFontSizeDirect: setNodeFontSizeDirect
setNodeHeightDirect: setNodeHeightDirect
setNodeImageDirect: setNodeImageDirect
setNodeLabelColorDirect: setNodeLabelColorDirect
setNodeLabelDirect: setNodeLabelDirect
setNodeLabelOpacityDirect: setNodeLabelOpacityDirect
setNodeLabelRule: setNodeLabelRule
setNodeOpacityDirect: setNodeOpacityDirect
setNodeOpacityRule: setNodeOpacityRule
setNodePosition: setNodePosition
setNodeShapeDirect: setNodeShapeDirect
setNodeShapeRule: setNodeShapeRule
setNodeSizeDirect: setNodeSizeDirect
setNodeSizeRule: setNodeSizeRule
setNodeTooltipRule: setNodeTooltipRule
setNodeWidthDirect: setNodeWidthDirect
setTooltipDismissDelay: setTooltipDismissDelay
setTooltipInitialDelay: setTooltipInitialDelay
setVisualStyle: setVisualStyle
setWindowSize: setWindowSize
setZoom: setZoom
showGraphicsDetails: showGraphicsDetails
unhideAll: unhideAll

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

Files

.BBSoptions
DESCRIPTION
NAMESPACE
NEWS
R
R/RCytoscape.R
R/test_RCytoscape_package.R
R/validCytoscapeWindow.R
README
build
build/vignette.rds
inst
inst/CITATION
inst/CytoscapeRPC.conf
inst/cytoscape.vmoptions
inst/doc
inst/doc/RCytoscape.R
inst/doc/RCytoscape.Rnw
inst/doc/RCytoscape.pdf
inst/makefile
inst/misc
inst/misc/adjacencyMatrixExplorations.R
inst/misc/bugs.py
inst/misc/cytoscapeRPC-examples.pl
inst/misc/many_networks.py
inst/misc/undirected-graphAM-script.R
inst/randomAdjacencyMatrixGraphTest.R
inst/sweave.R
inst/test.R
inst/toHtml.R
inst/unitTests
inst/unitTests/test_cytoscape.R
inst/vanillaTest.R
man
man/CytoscapeConnection.Rd
man/CytoscapeConnectionClass-class.Rd
man/CytoscapeWindow.Rd
man/CytoscapeWindowClass-class.Rd
man/addCyEdge.Rd
man/addCyNode.Rd
man/addGraphToGraph.Rd
man/clearMsg.Rd
man/clearSelection.Rd
man/copyVisualStyle.Rd
man/createWindow.Rd
man/createWindowFromSelection.Rd
man/cy2.edge.names.Rd
man/deleteAllWindows.Rd
man/deleteEdgeAttribute.Rd
man/deleteNodeAttribute.Rd
man/deleteSelectedEdges.Rd
man/deleteSelectedNodes.Rd
man/deleteWindow.Rd
man/demoSimpleGraph.Rd
man/displayGraph.Rd
man/dockPanel.Rd
man/eda.Rd
man/eda.names.Rd
man/existing.CytoscapeWindow.Rd
man/fitContent.Rd
man/fitSelectedContent.Rd
man/floatPanel.Rd
man/getAdjacentEdgeNames.Rd
man/getAllEdgeAttributes.Rd
man/getAllEdges.Rd
man/getAllNodeAttributes.Rd
man/getAllNodes.Rd
man/getArrowShapes.Rd
man/getAttributeClassNames.Rd
man/getCenter.Rd
man/getDefaultBackgroundColor.Rd
man/getDefaultEdgeReverseSelectionColor.Rd
man/getDefaultEdgeSelectionColor.Rd
man/getDefaultNodeReverseSelectionColor.Rd
man/getDefaultNodeSelectionColor.Rd
man/getDirectlyModifiableVisualProperties.Rd
man/getEdgeAttribute.Rd
man/getEdgeAttributeNames.Rd
man/getEdgeCount.Rd
man/getFirstNeighbors.Rd
man/getGraph.Rd
man/getGraphFromCyWindow.Rd
man/getLayoutNameMapping.Rd
man/getLayoutNames.Rd
man/getLayoutPropertyNames.Rd
man/getLayoutPropertyType.Rd
man/getLayoutPropertyValue.Rd
man/getLineStyles.Rd
man/getNodeAttribute.Rd
man/getNodeAttributeNames.Rd
man/getNodeCount.Rd
man/getNodePosition.Rd
man/getNodeShapes.Rd
man/getNodeSize.Rd
man/getSelectedEdgeCount.Rd
man/getSelectedEdges.Rd
man/getSelectedNodeCount.Rd
man/getSelectedNodes.Rd
man/getViewCoordinates.Rd
man/getVisualStyleNames.Rd
man/getWindowCount.Rd
man/getWindowID.Rd
man/getWindowList.Rd
man/getZoom.Rd
man/hideAllPanels.Rd
man/hideNodes.Rd
man/hidePanel.Rd
man/hideSelectedEdges.Rd
man/hideSelectedNodes.Rd
man/initEdgeAttribute.Rd
man/initNodeAttribute.Rd
man/invertEdgeSelection.Rd
man/invertNodeSelection.Rd
man/layoutNetwork.Rd
man/lockNodeDimensions.Rd
man/makeRandomGraph.Rd
man/makeSimpleGraph.Rd
man/msg.Rd
man/new.CytoscapeWindow.Rd
man/noa.Rd
man/noa.names.Rd
man/ping.Rd
man/pluginVersion.Rd
man/predictTimeToDisplayGraph.Rd
man/raiseWindow.Rd
man/redraw.Rd
man/restoreLayout.Rd
man/saveImage.Rd
man/saveLayout.Rd
man/saveNetwork.Rd
man/selectEdges.Rd
man/selectFirstNeighborsOfSelectedNodes.Rd
man/selectNodes.Rd
man/sendEdges.Rd
man/sendNodes.Rd
man/setCenter.Rd
man/setDefaultBackgroundColor.Rd
man/setDefaultEdgeColor.Rd
man/setDefaultEdgeFontSize.Rd
man/setDefaultEdgeLineWidth.Rd
man/setDefaultEdgeReverseSelectionColor.Rd
man/setDefaultEdgeSelectionColor.Rd
man/setDefaultNodeBorderColor.Rd
man/setDefaultNodeBorderWidth.Rd
man/setDefaultNodeColor.Rd
man/setDefaultNodeFontSize.Rd
man/setDefaultNodeLabelColor.Rd
man/setDefaultNodeReverseSelectionColor.Rd
man/setDefaultNodeSelectionColor.Rd
man/setDefaultNodeShape.Rd
man/setDefaultNodeSize.Rd
man/setEdgeAttributes.Rd
man/setEdgeAttributesDirect.Rd
man/setEdgeColorDirect.Rd
man/setEdgeColorRule.Rd
man/setEdgeFontSizeDirect.Rd
man/setEdgeLabelColorDirect.Rd
man/setEdgeLabelDirect.Rd
man/setEdgeLabelOpacityDirect.Rd
man/setEdgeLabelRule.Rd
man/setEdgeLabelWidthDirect.Rd
man/setEdgeLineStyleDirect.Rd
man/setEdgeLineStyleRule.Rd
man/setEdgeLineWidthDirect.Rd
man/setEdgeLineWidthRule.Rd
man/setEdgeOpacityDirect.Rd
man/setEdgeOpacityRule.Rd
man/setEdgeSourceArrowColorDirect.Rd
man/setEdgeSourceArrowColorRule.Rd
man/setEdgeSourceArrowOpacityDirect.Rd
man/setEdgeSourceArrowRule.Rd
man/setEdgeSourceArrowShapeDirect.Rd
man/setEdgeTargetArrowColorDirect.Rd
man/setEdgeTargetArrowColorRule.Rd
man/setEdgeTargetArrowOpacityDirect.Rd
man/setEdgeTargetArrowRule.Rd
man/setEdgeTargetArrowShapeDirect.Rd
man/setEdgeTooltipDirect.Rd
man/setEdgeTooltipRule.Rd
man/setGraph.Rd
man/setLayoutProperties.Rd
man/setNodeAttributes.Rd
man/setNodeAttributesDirect.Rd
man/setNodeBorderColorDirect.Rd
man/setNodeBorderColorRule.Rd
man/setNodeBorderOpacityDirect.Rd
man/setNodeBorderWidthDirect.Rd
man/setNodeBorderWidthRule.Rd
man/setNodeColorDirect.Rd
man/setNodeColorRule.Rd
man/setNodeFillOpacityDirect.Rd
man/setNodeFontSizeDirect.Rd
man/setNodeHeightDirect.Rd
man/setNodeImageDirect.Rd
man/setNodeLabelColorDirect.Rd
man/setNodeLabelDirect.Rd
man/setNodeLabelOpacityDirect.Rd
man/setNodeLabelRule.Rd
man/setNodeOpacityDirect.Rd
man/setNodeOpacityRule.Rd
man/setNodePosition.Rd
man/setNodeShapeDirect.Rd
man/setNodeShapeRule.Rd
man/setNodeSizeDirect.Rd
man/setNodeSizeRule.Rd
man/setNodeTooltipRule.Rd
man/setNodeWidthDirect.Rd
man/setTooltipDismissDelay.Rd
man/setTooltipInitialDelay.Rd
man/setVisualStyle.Rd
man/setWindowSize.Rd
man/setZoom.Rd
man/showGraphicsDetails.Rd
man/unhideAll.Rd
tests
tests/RCytoscape_unit_tests.R
vignettes
vignettes/RCytoscape.Rnw
RCytoscape documentation built on May 20, 2017, 10:11 p.m.