RedeR-package | RedeR: bridging the gap between network analysis and visualization. |
addEdgeBetweenContainers | Add edges between containers. |
addEdgeBetweenContainers-method | Add edges between containers. |
addEdges | Add edges to RedeR graphs. |
addEdges-method | Add edges to RedeR graphs. |
addGraph | Add graphs to RedeR application. |
addGraph-method | Add graphs to RedeR application. |
addLegend.color | Add graph legends to RedeR application. |
addLegend.color-method | Add graph legends to RedeR application. |
addLegend.shape | Add graph legends to RedeR application. |
addLegend.shape-method | Add graph legends to RedeR application. |
addLegend.size | Add graph legends to RedeR application. |
addLegend.size-method | Add graph legends to RedeR application. |
addNodes | Add nodes to RedeR graphs. |
addNodes-method | Add nodes to RedeR graphs. |
addSeries | Add series to RedeR application. |
addSeries-method | Add series to RedeR application. |
addSubgraph | Add subgraphs to RedeR application. |
addSubgraph-method | Add subgraphs to RedeR application. |
addSubgraph.list | Add a list of subgraphs to RedeR application. |
addSubgraph.list-method | Add a list of subgraphs to RedeR application. |
att.mape | Map and set edge and vertex attributes to RedeR application. |
att.mapv | Map and set edge and vertex attributes to RedeR application. |
att.sete | Map and set edge and vertex attributes to RedeR application. |
att.setv | Map and set edge and vertex attributes to RedeR application. |
calld | Call RedeR app from R. |
calld-method | Call RedeR app from R. |
Carroll2006 | Pre-processed dataset for RedeR case study. |
cea | Co-expression analysis. |
deleteEdges | Remove edges from RedeR graphs. |
deleteEdges-method | Remove edges from RedeR graphs. |
deleteNodes | Remove nodes from RedeR graphs. |
deleteNodes-method | Remove nodes from RedeR graphs. |
deletePlugin | Remove plugins from RedeR application. |
deletePlugin-method | Remove plugins from RedeR application. |
deleteSelectedEdges | Delete selected edges in RedeR graphs. |
deleteSelectedEdges-method | Delete selected edges in RedeR graphs. |
deleteSelectedNodes | Delete selected nodes in RedeR graphs. |
deleteSelectedNodes-method | Delete selected nodes in RedeR graphs. |
deSelectEdges | Unmark selected edges. |
deSelectEdges-method | Unmark selected edges. |
deSelectGraph | Unmark selected graph objects. |
deSelectGraph-method | Unmark selected graph objects. |
deSelectNodes | Unmark selected nodes. |
deSelectNodes-method | Unmark selected nodes. |
duplicateGraph | Duplicate graphs in RedeR application. |
duplicateGraph-method | Duplicate graphs in RedeR application. |
dynwin | Wrap R graphics. |
dynwin-method | Wrap R graphics. |
ER.deg | Pre-processed dataset for RedeR case study. |
ER.limma | Pre-processed dataset for RedeR case study. |
exitd | Exit RedeR R-to-Java interface. |
exitd-method | Exit RedeR R-to-Java interface. |
getArrowDirection | Get arrow direction. |
getArrowDirection-method | Get arrow direction. |
getContainerComponets | Get container components. |
getContainerComponets-method | Get container components. |
getEdgeColor | Get edge color. |
getEdgeColor-method | Get edge color. |
getEdgeIDs | Get edge IDs. |
getEdgeIDs-method | Get edge IDs. |
getEdges | Get edges. |
getEdges-method | Get edges. |
getEdgeType | Get edge type. |
getEdgeType-method | Get edge type. |
getEdgeWeight | Get edge weight. |
getEdgeWeight-method | Get edge weight. |
getEdgeWidth | Get edge width. |
getEdgeWidth-method | Get edge width. |
getGraph | Get RedeR graph. |
getGraph-method | Get RedeR graph. |
getNodeAliases | Get node aliases. |
getNodeAliases-method | Get node aliases. |
getNodeBend | Get node bend. |
getNodeBend-method | Get node bend. |
getNodeColor | Get node color. |
getNodeColor-method | Get node color. |
getNodeFontColor | Get font color. |
getNodeFontColor-method | Get font color. |
getNodeFontName | Get font name. |
getNodeFontName-method | Get font name. |
getNodeFontSize | Get font size. |
getNodeFontSize-method | Get font size. |
getNodeFontStyle | Get font style. |
getNodeFontStyle-method | Get font style. |
getNodeFontX | Get font x coordinate. |
getNodeFontX-method | Get font x coordinate. |
getNodeFontY | Get font y coordinate. |
getNodeFontY-method | Get font y coordinate. |
getNodeH | Get node height. |
getNodeH-method | Get node height. |
getNodeIDs | Get node IDs. |
getNodeIDs-method | Get node IDs. |
getNodeLineColor | Get node-line color. |
getNodeLineColor-method | Get node-line color. |
getNodeLineWidth | Get node-line width. |
getNodeLineWidth-method | Get node-line width. |
getNodes | Get nodes. |
getNodes-method | Get nodes. |
getNodeShape | Get node shape. |
getNodeShape-method | Get node shape. |
getNodeSize | Get node size. |
getNodeSize-method | Get node size. |
getNodeW | Get node with. |
getNodeW-method | Get node with. |
getNodeWeight | Get node weight. |
getNodeWeight-method | Get node weight. |
getNodeX | Get node x coordinate. |
getNodeX-method | Get node x coordinate. |
getNodeY | Get node y coordinate. |
getNodeY-method | Get node y coordinate. |
getSourceEdgeIDs | Get source-edge IDs. |
getSourceEdgeIDs-method | Get source-edge IDs. |
getSourceEdges | Get source edges. |
getSourceEdges-method | Get source edges. |
getTargetEdgeIDs | Get target-edge IDs. |
getTargetEdgeIDs-method | Get target-edge IDs. |
getTargetEdges | getTargetEdges |
getTargetEdges-method | getTargetEdges |
gtoy.rm | Random graphs and modules. |
hs.inter | Pre-processed dataset for RedeR case study. |
isDynamicsActive | Inquires about RedeR current state. |
isDynamicsActive-method | Inquires about RedeR current state. |
mergeNodes | Merge nodes. |
mergeNodes-method | Merge nodes. |
mergeOutEdges | Merge out-edges between connected containers and transfers edges from nodes to containers. |
mergeOutEdges-method | Merge out-edges between connected containers and transfers edges from nodes to containers. |
nesthc | Nest hclust objects to containers. |
nesthc-method | Nest hclust objects to containers. |
nestNodes | Nest nodes to containers. |
nestNodes-method | Nest nodes to containers. |
ping | Test RedeR R-to-Java interface. |
ping-method | Test RedeR R-to-Java interface. |
PluginBuilder | The constructor for the PluginBuilder class. |
PluginBuilder-class | Class 'PluginBuilder' |
pluginParser | RedeR plugin parser. |
RedeR | RedeR: bridging the gap between network analysis and visualization. |
rederexpresspost | Remote procedure calls optimized for RedeR. |
rederpost | Remote procedure calls optimized for RedeR. |
RedPort | The constructor for the RedPort class. |
RedPort-class | Class "RedPort" |
relax | relax |
relax-method | relax |
resetd | Reset RedeR app. |
resetd-method | Reset RedeR app. |
selectAllEdges | Select all edges. |
selectAllEdges-method | Select all edges. |
selectAllNodes | selectAllNodes |
selectAllNodes-method | selectAllNodes |
selectEdges | selectEdges |
selectEdges-method | selectEdges |
selectGraph | Select graph. |
selectGraph-method | Select graph. |
selectNodes | Select nodes. |
selectNodes-method | Select nodes. |
setArrowDirection | Set arrow direction. |
setArrowDirection-method | Set arrow direction. |
setEdgeColor | Set edge color. |
setEdgeColor-method | Set edge color. |
setEdgeType | Set edge type. |
setEdgeType-method | Set edge type. |
setEdgeWeight | Set edge weight. |
setEdgeWeight-method | Set edge weight. |
setEdgeWidth | Set edge width. |
setEdgeWidth-method | Set edge width. |
setNodeAlias | Set node alias. |
setNodeAlias-method | Set node alias. |
setNodeBend | Set node bend. |
setNodeBend-method | Set node bend. |
setNodeColor | Set node color. |
setNodeColor-method | Set node color. |
setNodeFontColor | Set font color. |
setNodeFontColor-method | Set font color. |
setNodeFontName | Set font name. |
setNodeFontName-method | Set font name. |
setNodeFontSize | Set font size. |
setNodeFontSize-method | Set font size. |
setNodeFontStyle | Set font style. |
setNodeFontStyle-method | Set font style. |
setNodeFontXY | Set font x,y coordinates. |
setNodeFontXY-method | Set font x,y coordinates. |
setNodeLineColor | Set node-line color. |
setNodeLineColor-method | Set node-line color. |
setNodeLineWidth | Set node-line width. |
setNodeLineWidth-method | Set node-line width. |
setNodeShape | Set node shape. |
setNodeShape-method | Set node shape. |
setNodeSize | Set node size. |
setNodeSize-method | Set node size. |
setNodeWeight | Set node weight. |
setNodeWeight-method | Set node weight. |
setNodeXY | Set node x,y coordinates. |
setNodeXY-method | Set node x,y coordinates. |
subg | Subgraph of a graph. |
submitPlugin | Submit plugins to RedeR application. |
submitPlugin-method | Submit plugins to RedeR application. |
updateContainerSize | Update container size. |
updateContainerSize-method | Update container size. |
updateGraph | Update RedeR graphs. |
updateGraph-method | Update RedeR graphs. |
updatePlugins | Update RedeR plugins. |
updatePlugins-method | Update RedeR plugins. |
version | Version |
version-method | Version |