All functions

AddToGroup()

Add to Group

RCy3

RCy3: Functions to Access and Control Cytoscape

RemoveFromGroup()

Remove from Group

UpdateAnnotationBoundedText()

Update Bounded Text Annotation

addAnnotationBoundedText()

Add Bounded Text Annotation

addAnnotationImage()

Add Image Annotation

addAnnotationShape()

Add Shape Annotation

addAnnotationText()

Add Text Annotation

addCyEdges()

Add CyEdges

addCyNodes()

Add CyNodes

analyzeNetwork()

Analyze Network

applyFilter()

Apply Filter

bundleEdges()

Bundle Edges

checkNotebookIsRunning()

checkNotebookIsRunning

checkRunningRemote()

checkRunningRemote

clearEdgeBends()

Clear Edge Bends

clearEdgePropertyBypass()

Clear Edge Property Bypass

clearNetworkCenterBypass()

Clear Network Center Bypass

clearNetworkPropertyBypass()

Clear Network Property Bypass

clearNetworkZoomBypass()

Clear Network Zoom Bypass

clearNodeOpacityBypass()

Clear Node Opacity Bypass

clearNodePropertyBypass()

Clear Node Property Bypass

clearSelection()

Clear Selection

cloneNetwork()

Clone a Cytoscape Network

closeSession()

Close Session

collapseGroup()

Collapse Group

commandEcho()

Command Echo

commandOpenDialog()

Command Open Dialog

commandPause()

Command Pause

commandQuit()

Command Quit

commandRunFile()

Command Run File

commandSleep()

Command Sleep

commandsAPI()

Open Swagger docs for CyREST Commands API

commandsGET()

Commands GET

commandsHelp()

Commands Help

commandsPOST()

Commands POST

commandsRun()

Run a Command

copyVisualStyle()

Copy Visual Style

createColumnFilter()

Create Column Filter

createCompositeFilter()

Create Composite Filter

createDegreeFilter()

Create Degree Filter

createGraphFromNetwork()

createGraphFromNetwork

createGroup()

Create Group

createGroupByColumn()

Create Group by Column

createIgraphFromNetwork()

Create an igraph network from a Cytoscape network

createNetworkFromDataFrames()

Create a network from data frames

createNetworkFromGraph()

Create Network From Graph

createNetworkFromIgraph()

Create a Cytoscape network from an igraph network

createSubnetwork()

Create subnetwork from existing network

createVisualStyle()

Create a visual style from components

cybrowserClose()

Cybrowser Close

cybrowserDialog()

Cybrowser Dialog

cybrowserHide()

Cybrowser Hide

cybrowserList()

Cybrowser List

cybrowserSend()

Cybrowser Send

cybrowserShow()

Cybrowser Show

cybrowserVersion()

Cybrowser Version

cyrestAPI()

Open Swagger docs for CyREST API

cyrestDELETE()

CyREST DELETE

cyrestGET()

CyREST GET

cyrestPOST()

CyREST POST

cyrestPUT()

CyREST PUT

cytoscapeApiVersions()

Available CyREST API Versions

cytoscapeFreeMemory()

Free Up Unused Memory for Cytoscape

cytoscapeMemoryStatus()

Memory Available to Cytoscape

cytoscapeNumberOfCores()

Number of Processors Available to Cytoscape

cytoscapePing()

Ping Cytoscape

cytoscapeVersionInfo()

Cytoscape and CyREST API Versions

deleteAllNetworks()

Delete All Networks

deleteAnnotation()

Delete Annotation

deleteDuplicateEdges()

Delete Duplicate Edges

deleteGroup()

Delete (or Ungroup) a Group

deleteNetwork()

Delete Network

deleteSelectedEdges()

Delete Selected Edges

deleteSelectedNodes()

Delete Selected Nodes

deleteSelfLoops()

Delete Self Loops

deleteStyleMapping()

Delete Style Mapping

deleteTableColumn()

Delete a table column

deleteVisualStyle()

Delete Visual Style

diffusionAdvanced()

Diffusion Advanced

diffusionBasic()

Diffusion Basic

disableApp()

Disable App

doInitializeSandbox()

doInitializeSandbox

doRequestRemote()

doRequestRemote

doSetSandbox()

doSetSandbox

dockPanel()

Dock Panel

.exportShowImage()

.exportShowImage

.getDefaultSandbox()

.getDefaultSandbox

.getRequester()

.getRequester

enableApp()

Enable App

expandGroup()

Expand Group

exportFilters()

Export Filters

exportImage()

Export Image

exportNetwork()

Export Network

exportNetworkToNDEx()

Export Network To NDEx

exportVisualStyles()

Export Visual Styles

findRemoteCytoscape()

findRemoteCytoscape

fitContent()

Fit Content

floatPanel()

Float Panel

getAbsSandboxPath()

getAbsSandboxPath

getAllEdges()

Get All Edges

getAllNodes()

Get All Nodes

getAllStyleMappings()

Get All Style Mappings

getAnnotationList()

Get Annotation List

getAppInformation()

Get App Information

getAppStatus()

App Status

getAppUpdates()

List Apps With Updates

getArrowShapes()

Get Arrow Shapes

getAvailableApps()

List Available Apps

getBackgroundColorDefault()

Get Background Color Default

getBrowserClientChannel()

getBrowserClientChannel

getBrowserClientJs()

getBrowserClientJs

getCollectionList()

Get Collection List

getCollectionName()

Get Collection Name

getCollectionNetworks()

Get Collection Networks

getCollectionSuid()

Get Collection Suid

getCurrentSandbox()

getCurrentSandbox

getCurrentSandboxName()

getCurrentSandboxName

getCurrentSandboxPath()

getCurrentSandboxPath

getCurrentStyle()

Get Current Style

getDefaultSandbox()

getDefaultSandbox

getDefaultSandboxPath()

getDefaultSandboxPath

getDisabledApps()

List Disabled Apps

getEdgeColor()

Get Edge Color

getEdgeCount()

Get Edge Count

getEdgeInfo()

Get Edge Information

getEdgeLineStyle()

Get Edge Line Style

getEdgeLineWidth()

Get Edge Line Width

getEdgeProperty()

Get Edge Property Values

getEdgeSelectionColorDefault()

Get Edge Selection Color Default

getEdgeTargetArrowShape()

Get Edge Target Arrow Shape

getFilterList()

Get Filter List

getFirstNeighbors()

Get list of nodes neighboring provided list

getGroupInfo()

Get Group Information

getInstalledApps()

List Installed Apps

getJupyterBridgeURL()

getJupyterBridgeURL

getLayoutNameMapping()

Get Layout Name Mapping

getLayoutNames()

Get Layout Names

getLayoutPropertyNames()

Get Layout Property Names

getLayoutPropertyType()

Get Layout Property Type

getLayoutPropertyValue()

Get Layout Property Value

getLineStyles()

Get Line Styles

getNetworkCenter()

Get Network Center

getNetworkCount()

Get the number of Cytoscape networks

getNetworkList()

Get the list of Cytoscape networks

getNetworkNDExId()

Get Network NDEx Id

getNetworkName()

Get the name of a network

getNetworkProperty()

Get Network Property Values

getNetworkSuid()

Get the SUID of a network

getNetworkViewSuid()

Get the SUID of a network view

getNetworkViews()

Get Network Views

getNetworkZoom()

Get Network Zoom

getNodeColor()

Get Node Color

getNodeCount()

Get Node Count

getNodeHeight()

Get Node Height

getNodePosition()

Get Node Position

getNodeProperty()

Get Node Property Values

getNodeSelectionColorDefault()

Get Node Selection Color Default

getNodeShapes()

Get Node Shapes

getNodeSize()

Get Node Size

getNodeWidth()

Get Node Width

getNotebookIsRunning()

getNotebookIsRunning

getSandboxReinitialize()

getSandboxReinitialize

getSelectedEdgeCount()

Get Selected Edge Count

getSelectedEdges()

Get Selected Edges

getSelectedNodeCount()

Get Selected Node Count

getSelectedNodes()

Get Selected Nodes

getStyleDependencies()

Get the values of dependencies in a style

getStyleMapping()

Get Style Mapping

getTableColumnNames()

Get Table Column Names

getTableColumnTypes()

Get Table Column Types

getTableColumns()

Get table column values

getTableValue()

Get table cell value

getUninstalledApps()

List Uninstalled Apps

getVisualPropertyDefault()

Get Visual Property Default

getVisualPropertyNames()

Get Visual Property Names

getVisualStyleNames()

Get Visual Style Names

groupAnnotation()

Group Annotation

hideAllPanels()

Hide All Panels

hideEdges()

Hide Edges

hideNodes()

Hide Nodes

hidePanel()

Hide Panel

hideSelectedEdges()

Hide Selected Edges

hideSelectedNodes()

Hide Selected Nodes

importFilters()

Import Filters

importNetworkFromFile()

Import Network From File

importNetworkFromNDEx()

Import Network From NDEx

importVisualStyles()

Import Visual Styles

installApp()

Install App

invertEdgeSelection()

Invert Edge Selection

invertNodeSelection()

Invert Node Selection

layoutCopycat()

Copy a layout from one network to another

layoutNetwork()

Apply a layout to a network

listGroups()

List Groups

loadTableData()

Loads data into Cytoscape tables keyed by row

lockNodeDimensions()

Lock Node Dimensions

makeSimpleGraph()

Make Simple Graph

makeSimpleIgraph()

Make Simple Igraph

mapTableColumn()

Map Table Column

mapVisualProperty()

Creates a mapping between an attribute and a visual property

matchArrowColorToEdge()

Match Arrow Color To Edge

mergeNetworks()

Merge Networks

notebookExportShowImage()

notebookExportShowImage

notebookShowImage()

notebookShowImage

openAppStore()

Open App Store Page

openSession()

Open Session File or URL

paletteColorBrewerAccent()

paletteColorBrewerAccent Qualitative

paletteColorBrewerBlues()

paletteColorBrewerBlues Sequential

paletteColorBrewerBrBG()

paletteColorBrewerBrBG Divergent

paletteColorBrewerBuGn()

paletteColorBrewerBuGn Sequential

paletteColorBrewerBuPu()

paletteColorBrewerBuPu Sequential

paletteColorBrewerDark2()

paletteColorBrewerDark2 Qualitative

paletteColorBrewerGnBu()

paletteColorBrewerGnBu Sequential

paletteColorBrewerGreens()

paletteColorBrewerGreens Sequential

paletteColorBrewerGreys()

paletteColorBrewerGreys Sequential

paletteColorBrewerOrRd()

paletteColorBrewerOrRd Sequential

paletteColorBrewerOranges()

paletteColorBrewerOranges Sequential

paletteColorBrewerPRGn()

paletteColorBrewerPRGn Divergent

paletteColorBrewerPaired()

paletteColorBrewerPaired Qualitative

paletteColorBrewerPastel1()

paletteColorBrewerPastel1 Qualitative

paletteColorBrewerPastel2()

paletteColorBrewerPastel2 Qualitative

paletteColorBrewerPiYG()

paletteColorBrewerPiYG Divergent

paletteColorBrewerPuBu()

paletteColorBrewerPuBu Sequential

paletteColorBrewerPuBuGn()

paletteColorBrewerPuBuGn Sequential

paletteColorBrewerPuOr()

paletteColorBrewerPuOr Divergent

paletteColorBrewerPuRd()

paletteColorBrewerPuRd Sequential

paletteColorBrewerPurples()

paletteColorBrewerPurples Sequential

paletteColorBrewerRdBu()

paletteColorBrewerRdBu Divergent

paletteColorBrewerRdPu()

paletteColorBrewerRdPu Sequential

paletteColorBrewerRdYlBu()

paletteColorBrewerRdYlBu Divergent

paletteColorBrewerReds()

paletteColorBrewerReds Sequential

paletteColorBrewerSet1()

paletteColorBrewerSet1 Qualitative

paletteColorBrewerSet2()

paletteColorBrewerSet2 Qualitative

paletteColorBrewerSet3()

paletteColorBrewerSet3 Qualitative

paletteColorBrewerYlGn()

paletteColorBrewerYlGn Sequential

paletteColorBrewerYlGnBu()

paletteColorBrewerYlGnBu Sequential

paletteColorBrewerYlOrBr()

paletteColorBrewerYlOrBr Sequential

paletteColorBrewerYlOrRd()

paletteColorBrewerYlOrRd Sequential

paletteColorRandom()

paletteColorRandom Qualitative

removeNodeCustomGraphics()

Remove Node Custom Graphics

renameNetwork()

Rename a network

renameTableColumn()

Rename Table Column

resetDefaultSandbox()

resetDefaultSandbox

runningRemoteCheck()

runningRmoteCheck

sandboxGetFileInfo()

sandboxGetFileInfo

sandboxGetFrom()

sandboxGetFrom

sandboxInitializer()

sandboxInitializer

sandboxRemove()

sandboxRemove

sandboxRemoveFile()

sandboxRemoveFile

sandboxSendTo()

sandboxSendTo

sandboxSet()

sandboxSet

sandboxUrlTo()

sandboxUrlTo

saveSession()

Save Session to File

selectAllEdges()

Select all edges

selectAllNodes()

Select all nodes

selectEdges()

Select Edges

selectEdgesAdjacentToSelectedNodes()

Select Edges Adjacent To Selected Nodes

selectEdgesConnectingSelectedNodes()

Select the edges connecting selected nodes in Cytoscape Network

selectFirstNeighbors()

Select first neighbor nodes

selectNodes()

Select Nodes

selectNodesConnectedBySelectedEdges()

Select Nodes Connected By Selected Edges

setBackgroundColorDefault()

Set Background Color Default

setCatchupFilterSecs()

Set Catchup Filter Delay

setCatchupNetworkSecs()

Set Catchup Network Delay

setCurrentNetwork()

Set current network

setCurrentSandbox()

setCurrentSandbox

setCurrentView()

Set Current View

setDefaultSandbox()

setDefaultSandbox

setDefaultSandboxPath()

setDefaultSandboxPath

setEdgeColorBypass()

Set Edge Color Bypass

setEdgeColorDefault()

Set Edge Color Default

setEdgeColorMapping()

Set Edge Color Mapping

setEdgeFontFaceBypass()

Set Edge Font Face Bypass

setEdgeFontFaceDefault()

Set Edge Font Face Default

setEdgeFontFaceMapping()

Set Edge Font Face Mapping

setEdgeFontSizeBypass()

Set Edge Font Size Bypass

setEdgeFontSizeDefault()

Set Edge Font Size Default

setEdgeFontSizeMapping()

Set Edge Font Size Mapping

setEdgeLabelBypass()

Set Edge Label Bypass

setEdgeLabelColorBypass()

Set Edge Label Color Bypass

setEdgeLabelColorDefault()

Set Edge Label Color Default

setEdgeLabelColorMapping()

Set Edge Label Color Mapping

setEdgeLabelDefault()

Set Edge Label Default

setEdgeLabelMapping()

Set Edge Label Mapping

setEdgeLabelOpacityBypass()

Set Edge Label Opacity Bypass

setEdgeLabelOpacityDefault()

Set Edge Label Opacity Default

setEdgeLabelOpacityMapping()

Set Edge Label Opacity Mapping

setEdgeLineStyleBypass()

Set Edge Line Style Bypass

setEdgeLineStyleDefault()

Set Edge Line Style Default

setEdgeLineStyleMapping()

Set Edge Line Style Mapping

setEdgeLineWidthBypass()

Set Edge Line Width Bypass

setEdgeLineWidthDefault()

Set Edge Line Width Default

setEdgeLineWidthMapping()

Set Edge Line Width Mapping

setEdgeOpacityBypass()

Set Edge Opacity Bypass

setEdgeOpacityDefault()

Set Edge Opacity Default

setEdgeOpacityMapping()

Set Edge Opacity Mapping

setEdgePropertyBypass()

Set Edge Property Bypass

setEdgeSelectionColorDefault()

Set Edge Selection Color Default

setEdgeSourceArrowColorBypass()

Set Edge Source Arrow Color Bypass

setEdgeSourceArrowColorDefault()

Set Edge Source Arrow Color Default

setEdgeSourceArrowColorMapping()

Set Edge Source Arrow Color Mapping

setEdgeSourceArrowMapping()

Set Edge Source Arrow Mapping

setEdgeSourceArrowShapeBypass()

Set Edge Source Arrow Shape Bypass

setEdgeSourceArrowShapeDefault()

Set Edge Source Arrow Shape Default

setEdgeSourceArrowShapeMapping()

Set Edge Source Arrow Shape Mapping

setEdgeTargetArrowColorBypass()

Set Edge Target Arrow Color Bypass

setEdgeTargetArrowColorDefault()

Set Edge Target Arrow Color Default

setEdgeTargetArrowColorMapping()

Set Edge Target Arrow Color Mapping

setEdgeTargetArrowMapping()

Set Edge Target Arrow Mapping

setEdgeTargetArrowShapeBypass()

Set Edge Target Arrow Shape Bypass

setEdgeTargetArrowShapeDefault()

Set Edge Target Arrow Shape Default

setEdgeTargetArrowShapeMapping()

Set Edge Target Arrow Shape Mapping

setEdgeTooltipBypass()

Set Edge Tooltip Bypass

setEdgeTooltipDefault()

Set Edge Tooltip Default

setEdgeTooltipMapping()

Set Edge Tooltip Mapping

setLayoutProperties()

Set Layout Properties

setModelPropagationSecs()

Set Model Propagation Delay

setNetworkCenterBypass()

Set Network Center Bypass

setNetworkPropertyBypass()

Set Network Property Bypass

setNetworkZoomBypass()

Set Network Zoom Bypass

setNodeBorderColorBypass()

Set Node Border Color Bypass

setNodeBorderColorDefault()

Set Node Border Color Default

setNodeBorderColorMapping()

Set Node Border Color Mapping

setNodeBorderOpacityBypass()

Set Node Border Opacity Bypass

setNodeBorderOpacityDefault()

Set Node Border Opacity Default

setNodeBorderOpacityMapping()

Set Node Border Opacity Mapping

setNodeBorderWidthBypass()

Set Node Border Width Bypass

setNodeBorderWidthDefault()

Set Node Border Width Default

setNodeBorderWidthMapping()

Set Node Border Width Mapping

setNodeColorBypass()

Set Node Color Bypass

setNodeColorDefault()

Set Node Color Default

setNodeColorMapping()

Set Node Color Mapping

setNodeComboOpacityMapping()

Set Node Combo Opacity Mapping

setNodeCustomBarChart()

Set Node Custom Bar Chart

setNodeCustomBoxChart()

Set Node Custom Box Chart

setNodeCustomHeatMapChart()

Set Node Custom HeatMap Chart

setNodeCustomLineChart()

Set Node Custom Line Chart

setNodeCustomLinearGradient()

Set Node Custom Linear Gradient

setNodeCustomPieChart()

Set Node Custom Pie Chart

setNodeCustomPosition()

Set Node Custom Position

setNodeCustomRadialGradient()

Set Node Custom Radial Gradient

setNodeCustomRingChart()

Set Node Custom Ring Chart

setNodeFillOpacityBypass()

Set Node Fill Opacity Bypass

setNodeFillOpacityDefault()

Set Node Fill Opacity Default

setNodeFillOpacityMapping()

Set Node Fill Opacity Mapping

setNodeFontFaceBypass()

Set Node Font Face Bypass

setNodeFontFaceDefault()

Set Node Font Face Default

setNodeFontFaceMapping()

Set Node Font Face Mapping

setNodeFontSizeBypass()

Set Node Font Size Bypass

setNodeFontSizeDefault()

Set Node Font Size Default

setNodeFontSizeMapping()

Set Node Font Size Mapping

setNodeHeightBypass()

Set Node Height Bypass

setNodeHeightDefault()

Set Node Height Default

setNodeHeightMapping()

Set Node Height Mapping

setNodeLabelBypass()

Set Node Label Bypass

setNodeLabelColorBypass()

Set Node Label Color Bypass

setNodeLabelColorDefault()

Set Node Label Color Default

setNodeLabelColorMapping()

Set Node Label Color Mapping

setNodeLabelDefault()

Set Node Label Default

setNodeLabelMapping()

Set Node Label Mapping

setNodeLabelOpacityBypass()

Set Node Label Opacity Bypass

setNodeLabelOpacityDefault()

Set Node Label Opacity Default

setNodeLabelOpacityMapping()

Set Node Label Opacity Mapping

setNodeOpacityBypass()

Set Node Opacity Bypass

setNodePropertyBypass()

Set Node Property Bypass

setNodeSelectionColorDefault()

Set Node Selection Color Default

setNodeShapeBypass()

Set Node Shape Bypass

setNodeShapeDefault()

Set Node Shape Default

setNodeShapeMapping()

Set Node Shape Mapping

setNodeSizeBypass()

Set Node Size Bypass

setNodeSizeDefault()

Set Node Size Default

setNodeSizeMapping()

Set Node Size Mapping

setNodeTooltipBypass()

Set Node Tooltip Bypass

setNodeTooltipDefault()

Set Node Tooltip Default

setNodeTooltipMapping()

Set Node Tooltip Mapping

setNodeWidthBypass()

Set Node Width Bypass

setNodeWidthDefault()

Set Node Width Default

setNodeWidthMapping()

Set Node Width Mapping

setNotebookIsRunning()

setNotebookIsRunning

setSandboxReinitialize()

setSandboxReinitialize

setStyleDependencies()

Set Style Dependencies

setVisualPropertyDefault()

Set Visual Property Default

setVisualStyle()

Set Visual Style

spoofResponse-class

spoofResponse

syncNodeCustomGraphicsSize()

Sync Node Custom Graphics Size

toggleGraphicsDetails()

Toggle Graphics Details

ungroupAnnotation()

Ungroup Annotation Group

unhideAll()

Unhide All

unhideEdges()

Unhide Edges

unhideNodes()

Unhide Nodes

uninstallApp()

Uninstall App

updateAnnotationImage()

Update Image Annotation

updateAnnotationShape()

Update Shape Annotation

updateAnnotationText()

Update Text Annotation

updateApp()

Update App

updateGroupAnnotation()

Update Group Annotation

updateNetworkInNDEx()

Update Network In NDEx

updateStyleDefaults()

Updates the default values of visual properties in a style

updateStyleMapping()

Updates a visual property mapping in a style