Display and manipulate graphs in Cytoscape


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Documentation for package ‘RCytoscape’ version 1.0.1

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C D E F G H I L M N P R S U V

-- C --

clearMsg clearMsg
clearMsg-method clearMsg
clearSelection clearSelection
clearSelection-method clearSelection
createWindow createWindow
createWindow-method createWindow
cy2.edge.names cy2.edge.names
CytoscapeWindow CytoscapeWindow
CytoscapeWindowClass-class Class "CytoscapeWindowClass"

-- D --

destroyAllWindows destroyAllWindows
destroyAllWindows-method destroyAllWindows
destroyWindow destroyWindow
destroyWindow-method destroyWindow
displayGraph displayGraph
displayGraph-method displayGraph
dockPanel dockPanel
dockPanel-method dockPanel

-- E --

eda eda
eda.names eda.names

-- F --

firstNeighbors firstNeighbors
firstNeighbors-method firstNeighbors
floatPanel floatPanel
floatPanel-method floatPanel

-- G --

getAllEdges getAllEdges
getAllEdges-method getAllEdges
getAllNodes getAllNodes
getAllNodes-method getAllNodes
getArrowShapes getArrowShapes
getArrowShapes-method getArrowShapes
getAttributeClassNames getAttributeClassNames
getAttributeClassNames-method getAttributeClassNames
getGraph getGraph
getGraph-method getGraph
getLayoutNames getLayoutNames
getLayoutNames-method getLayoutNames
getLineStyles getLineStyles
getLineStyles-method getLineStyles
getNodeShapes getNodeShapes
getNodeShapes-method getNodeShapes
getSelectedNodeCount getSelectedNodeCount
getSelectedNodeCount-method getSelectedNodeCount
getSelectedNodes getSelectedNodes
getSelectedNodes-method getSelectedNodes
getWindowCount getWindowCount
getWindowCount-method getWindowCount
getWindowList getWindowList
getWindowList-method getWindowList

-- H --

hidePanel hidePanel
hidePanel-method hidePanel
hideSelectedNodes hideSelectedNodes
hideSelectedNodes-method hideSelectedNodes

-- I --

initEdgeAttribute initEdgeAttribute
initNodeAttribute initNodeAttribute

-- L --

layout layout
layout-method layout

-- M --

makeRandomGraph makeRandomGraph
makeSimpleGraph makeSimpleGraph
msg msg
msg-method msg

-- N --

noa noa
noa.names noa.names

-- P --

ping ping
ping-method ping

-- R --

redraw redraw
redraw-method redraw

-- S --

selectNodes selectNodes
selectNodes-method selectNodes
sendEdgeAttributes sendEdgeAttributes
sendEdgeAttributes-method sendEdgeAttributes
sendEdgeAttributesDirect sendEdgeAttributesDirect
sendEdgeAttributesDirect-method sendEdgeAttributesDirect
sendEdges sendEdges
sendEdges-method sendEdges
sendNodeAttributes sendNodeAttributes
sendNodeAttributes-method sendNodeAttributes
sendNodeAttributesDirect sendNodeAttributesDirect
sendNodeAttributesDirect-method sendNodeAttributesDirect
sendNodes sendNodes
sendNodes-method sendNodes
setDefaultEdgeColor setDefaultEdgeColor
setDefaultEdgeColor-method setDefaultEdgeColor
setDefaultEdgeLineWidth setDefaultEdgeLineWidth
setDefaultEdgeLineWidth-method setDefaultEdgeLineWidth
setDefaultNodeBorderColor setDefaultNodeBorderColor
setDefaultNodeBorderColor-method setDefaultNodeBorderColor
setDefaultNodeBorderWidth setDefaultNodeBorderWidth
setDefaultNodeBorderWidth-method setDefaultNodeBorderWidth
setDefaultNodeColor setDefaultNodeColor
setDefaultNodeColor-method setDefaultNodeColor
setDefaultNodeFontSize setDefaultNodeFontSize
setDefaultNodeFontSize-method setDefaultNodeFontSize
setDefaultNodeLabelColor setDefaultNodeLabelColor
setDefaultNodeLabelColor-method setDefaultNodeLabelColor
setDefaultNodeShape setDefaultNodeShape
setDefaultNodeShape-method setDefaultNodeShape
setDefaultNodeSize setDefaultNodeSize
setDefaultNodeSize-method setDefaultNodeSize
setEdgeColorRule setEdgeColorRule
setEdgeColorRule-method setEdgeColorRule
setEdgeLineStyleRule specify the line styles to be used in drawing edges
setEdgeLineStyleRule-method specify the line styles to be used in drawing edges
setEdgeSourceArrowColorRule Specify Rule for the Source Arrow Color
setEdgeSourceArrowColorRule-method Specify Rule for the Source Arrow Color
setEdgeSourceArrowRule specify the arrow types to be used at the end of an edge, at the
setEdgeSourceArrowRule-method specify the arrow types to be used at the end of an edge, at the
setEdgeTargetArrowColorRule Specify Rule for the Target Arrow Color
setEdgeTargetArrowColorRule-method Specify Rule for the Target Arrow Color
setEdgeTargetArrowRule specify the arrow types to be used at the end of an edge, at the
setEdgeTargetArrowRule-method specify the arrow types to be used at the end of an edge, at the
setEdgeTooltipRule setEdgeTooltipRule
setEdgeTooltipRule-method setEdgeTooltipRule
setGraph setGraph
setGraph-method setGraph
setNodeBorderColorRule setNodeBorderColorRule
setNodeBorderColorRule-method setNodeBorderColorRule
setNodeColorRule setNodeColorRule
setNodeColorRule-method setNodeColorRule
setNodeLabelRule setNodeLabelRule
setNodeLabelRule-method setNodeLabelRule
setNodeShapeRule setNodeShapeRule
setNodeShapeRule-method setNodeShapeRule
setNodeSizeRule setNodeSizeRule
setNodeSizeRule-method setNodeSizeRule
setNodeTooltipRule setNodeTooltipRule
setNodeTooltipRule-method setNodeTooltipRule
setPosition setPosition
setPosition-method setPosition
sfn sfn
sfn-method sfn

-- U --

unhideAll unhideAll
unhideAll-method unhideAll

-- V --

version version
version-method version