| acc |
Methods for Accessibility Lists |
| acc,clusterGraph,character-method |
Methods for Accessibility Lists |
| acc,clusterGraph-method |
Methods for Accessibility Lists |
| acc,graph,character-method |
Methods for Accessibility Lists |
| acc,graph-method |
Methods for Accessibility Lists |
| acc-methods |
Methods for Accessibility Lists |
| addEdge |
addEdge |
| addEdge,character,character,graphAM,missing-method |
Class "graphAM" |
| addEdge,character,character,graphNEL,missing-method |
Class "graphNEL" |
| addEdge,character,character,graphNEL,numeric-method |
Class "graphNEL" |
| addNode |
addNode |
| addNode,character,distGraph,list-method |
addNode |
| addNode,character,graphAM,missing-method |
Class "graphAM" |
| addNode,character,graphNEL,list-method |
addNode |
| addNode,character,graphNEL,missing-method |
addNode |
| addNode,character,graphNEL-method |
Class "graphNEL" |
| adj |
Methods for finding the adjacency list for selected nodes. |
| adj,clusterGraph-method |
Class "clusterGraph" |
| adj,distGraph-method |
Class "distGraph" |
| adj,graphNEL-method |
Class "graphNEL" |
| adj-methods |
Methods for finding the adjacency list for selected nodes. |
| aM2bpG |
Coercions between matrix and graph representations |
| apopAttrs |
KEGG apoptosis pathway graph |
| apopGraph |
KEGG apoptosis pathway graph |
| apopLocusLink |
KEGG apoptosis pathway graph |
| attrData-class |
Class "attrData" |
| attrDataItem |
Get and set attributes values for items in an attrData object |
| attrDataItem,attrData,character,character-method |
Class "attrData" |
| attrDataItem,attrData,character,missing-method |
Class "attrData" |
| attrDataItem-methods |
Get and set attributes values for items in an attrData object |
| attrDataItem<-,attrData,character,character-method |
Class "attrData" |
| attrDataItem<--methods |
Get and set attributes values for items in an attrData object |
| attrDefaults |
Get and set the default attributes of an attrData object |
| attrDefaults,attrData,character-method |
Class "attrData" |
| attrDefaults,attrData,missing-method |
Class "attrData" |
| attrDefaults-methods |
Get and set the default attributes of an attrData object |
| attrDefaults<-,attrData,character,ANY-method |
Class "attrData" |
| attrDefaults<-,attrData,missing,list-method |
Class "attrData" |
| attrDefaults<--methods |
Get and set the default attributes of an attrData object |
| aveNumEdges |
Calculate the average number of edges in a graph |
| calcProb |
Calculate the hypergeometric probability of the subgraph's number of edges. |
| calcSumProb |
Calculate the probability that a subgraph has an unusual number of edges. |
| clearNode |
clearNode |
| clearNode,character,graphAM-method |
Class "graphAM" |
| clearNode,character,graphNEL-method |
Class "graphNEL" |
| clusterGraph-class |
Class "clusterGraph" |
| clusteringCoefficient |
Clustering coefficient of a graph |
| clusteringCoefficient,graph |
Clustering coefficient of a graph |
| clusteringCoefficient,graph-method |
Clustering coefficient of a graph |
| coerce |
Class "graphNEL" |
| coerce,graphAM,graphNEL-method |
Class "graphAM" |
| coerce,graphAM,matrix-method |
Class "graphAM" |
| coerce,graphNEL,generalGraph-method |
Class "graphNEL" |
| coerce,graphNEL,graphAM-method |
Class "graphNEL" |
| coerce,graphNEL,matrix-method |
Coercions between matrix and graph representations |
| coerce,matrix,graphAM-method |
Class "graphAM" |
| coerce,matrix,graphNEL-method |
Coercions between matrix and graph representations |
| combineNodes |
combineNodes |
| combineNodes,character,graphNEL,character-method |
Class "graphNEL" |
| complement |
Class "graph" |
| complement,graph-method |
Class "graph" |
| connComp |
Class "graph" |
| connComp,clusterGraph-method |
Class "clusterGraph" |
| connComp,graph-method |
Class "graph" |
| connection-class |
Methods for GXL manipulations in package graph |
| edgeData |
Get and set attributes for the edges of a graph object |
| edgeData,graph,character,character,character-method |
Class "graph" |
| edgeData,graph,character,character,missing-method |
Class "graph" |
| edgeData,graph,character,missing,character-method |
Class "graph" |
| edgeData,graph,missing,character,character-method |
Class "graph" |
| edgeData,graph,missing,missing,character-method |
Class "graph" |
| edgeData,graph,missing,missing,missing-method |
Class "graph" |
| edgeData-methods |
Get and set attributes for the edges of a graph object |
| edgeData<-,graph,character,character,character-method |
Class "graph" |
| edgeData<-,graph,character,missing,character-method |
Class "graph" |
| edgeData<-,graph,missing,character,character-method |
Class "graph" |
| edgeData<--methods |
Get and set attributes for the edges of a graph object |
| edgeDataDefaults |
Get and set default attributes for the edges of a graph |
| edgeDataDefaults,graph,character-method |
Class "graph" |
| edgeDataDefaults,graph,missing-method |
Class "graph" |
| edgeDataDefaults-methods |
Get and set default attributes for the edges of a graph |
| edgeDataDefaults<-,graph,character,ANY-method |
Class "graph" |
| edgeDataDefaults<-,graph,character-method |
Class "graph" |
| edgeDataDefaults<-,graph,missing,list-method |
Class "graph" |
| edgeDataDefaults<--methods |
Get and set default attributes for the edges of a graph |
| edgeL |
Class "graphNEL" |
| edgeL,graph-method |
Class "graph" |
| edgeL,graphNEL-method |
Class "graphNEL" |
| edgeMatrix |
Compute an Edge Matrix or weight vector for a Graph |
| edgeMatrix,clusterGraph-method |
Compute an Edge Matrix or weight vector for a Graph |
| edgeMatrix,distGraph-method |
Compute an Edge Matrix or weight vector for a Graph |
| edgeMatrix,graphNEL-method |
Compute an Edge Matrix or weight vector for a Graph |
| edgemode |
Class "graph" |
| edgemode,graph-method |
Class "graph" |
| edgemode<-,graph,character-method |
Class "graph" |
| edgeNames |
Class "graph" |
| edgeNames,graph-method |
Class "graph" |
| edges |
Class "graphNEL" |
| edges,clusterGraph,character-method |
Class "clusterGraph" |
| edges,clusterGraph,missing-method |
Class "clusterGraph" |
| edges,distGraph,character-method |
Class "distGraph" |
| edges,distGraph,missing-method |
Class "distGraph" |
| edges,graphAM,character-method |
Class "graphAM" |
| edges,graphAM,missing-method |
Class "graphAM" |
| edges,graphNEL,character-method |
Class "graphNEL" |
| edges,graphNEL,missing-method |
Class "graphNEL" |
| edgeWeights |
Retrieve the edge weights of a graph |
| edgeWeights,clusterGraph,ANY-method |
Class "clusterGraph" |
| edgeWeights,clusterGraph-method |
Class "clusterGraph" |
| edgeWeights,distGraph,ANY-method |
Class "distGraph" |
| edgeWeights,distGraph-method |
Class "distGraph" |
| edgeWeights,graph,character-method |
Class "graph" |
| edgeWeights,graph,missing-method |
Class "graph" |
| edgeWeights,graph,numeric-method |
Class "graph" |
| edgeWeights,graphNEL-method |
Class "graphNEL" |
| eWV |
Compute an Edge Matrix or weight vector for a Graph |
| IMCA |
KEGG Integrin Mediated Cell Adhesion graph |
| IMCAAttrs |
KEGG Integrin Mediated Cell Adhesion graph |
| IMCAGraph |
KEGG Integrin Mediated Cell Adhesion graph |
| inEdges |
Generic Method inEdges |
| inEdges,character,graphAM-method |
Class "graphAM" |
| inEdges,character,graphNEL-method |
Class "graphNEL" |
| inEdges,graphAM,missing-method |
Class "graphAM" |
| inEdges,graphNEL,missing-method |
Class "graphNEL" |
| inEdges,missing,graphAM-method |
Class "graphAM" |
| inEdges,missing,graphNEL-method |
Class "graphNEL" |
| initialize |
Class "graphNEL" |
| initialize,attrData-method |
Class "attrData" |
| initialize,distGraph-method |
Class "distGraph" |
| initialize,graphAM-method |
Class "graphAM" |
| initialize,graphNEL-method |
Class "graphNEL" |
| int2ftM |
Standard labeling of edges with integers |
| integrinMediatedCellAdhesion |
KEGG Integrin Mediated Cell Adhesion graph |
| intersection |
Class "graph" |
| intersection,graph,graph-method |
Class "graph" |
| intersection2 |
Class "graph" |
| intersection2,graph,graph-method |
Class "graph" |
| isAdjacent |
Determine if nodes share an edge in a graph |
| isAdjacent,graph,character,character-method |
Class "graph" |
| isAdjacent,graphAM,character,character-method |
Class "graphAM" |
| isAdjacent-methods |
Determine if nodes share an edge in a graph |
| isConnected |
Class "graph" |
| isConnected,graph-method |
Class "graph" |
| isDirected |
Determine if a graph has directed or undirected edges |
| isDirected,graph-method |
Class "graph" |
| isDirected-methods |
Determine if a graph has directed or undirected edges |
| NELhandler |
Methods for GXL manipulations in package graph |
| nodeData |
Get and set attributes for the nodes of a graph object |
| nodeData,graph,character,character-method |
Class "graph" |
| nodeData,graph,character,missing-method |
Class "graph" |
| nodeData,graph,missing,character-method |
Class "graph" |
| nodeData,graph,missing,missing-method |
Class "graph" |
| nodeData-methods |
Get and set attributes for the nodes of a graph object |
| nodeData<-,graph,character,character-method |
Class "graph" |
| nodeData<-,graph,missing,character-method |
Class "graph" |
| nodeData<--methods |
Get and set attributes for the nodes of a graph object |
| nodeDataDefaults |
Get and set default attributes for the nodes of a graph |
| nodeDataDefaults,graph,character-method |
Class "graph" |
| nodeDataDefaults,graph,missing-method |
Class "graph" |
| nodeDataDefaults-methods |
Get and set default attributes for the nodes of a graph |
| nodeDataDefaults<-,graph,character,ANY-method |
Class "graph" |
| nodeDataDefaults<-,graph,character-method |
Class "graph" |
| nodeDataDefaults<-,graph,missing,list-method |
Class "graph" |
| nodeDataDefaults<--methods |
Get and set default attributes for the nodes of a graph |
| nodes |
Class "graphNEL" |
| nodes,clusterGraph-method |
Class "clusterGraph" |
| nodes,distGraph-method |
Class "distGraph" |
| nodes,graphAM-method |
Class "graphAM" |
| nodes,graphNEL-method |
Class "graphNEL" |
| nodes<-,clusterGraph,character-method |
Class "clusterGraph" |
| nodes<-,graphAM,character-method |
Class "graphAM" |
| nodes<-,graphNEL,character-method |
Class "graphNEL" |
| numEdges |
Class "graph" |
| numEdges,graph-method |
Class "graph" |
| numEdges,graphAM-method |
Class "graphAM" |
| numNodes |
Class "graph" |
| numNodes,clusterGraph-method |
Class "clusterGraph" |
| numNodes,distGraph-method |
Class "distGraph" |
| numNodes,graph-method |
Class "graph" |
| numNodes,graphAM-method |
Class "graphAM" |
| numNodes,graphNEL-method |
Class "graphNEL" |
| numNoEdges |
Calculate the number of nodes that have an edge list of NULL |
| threshold |
Class "distGraph" |
| threshold,distGraph-method |
Class "distGraph" |
| toDotR |
Methods for Function toDotR, using R to generate a dot serialization |
| toDotR,graphNEL,character,list,list-method |
Methods for Function toDotR, using R to generate a dot serialization |
| toDotR,graphNEL,character,missing,list-method |
Methods for Function toDotR, using R to generate a dot serialization |
| toDotR,graphNEL,character,missing,missing-method |
Methods for Function toDotR, using R to generate a dot serialization |
| toDotR,graphNEL,missing,character,missing-method |
Methods for Function toDotR, using R to generate a dot serialization |
| toDotR,graphNEL,missing,list,list-method |
Methods for Function toDotR, using R to generate a dot serialization |
| toDotR,graphNEL,missing,list,missing-method |
Methods for Function toDotR, using R to generate a dot serialization |
| toDotR,graphNEL,missing,missing,list-method |
Methods for Function toDotR, using R to generate a dot serialization |
| toDotR,graphNEL,missing,missing,missing-method |
Methods for Function toDotR, using R to generate a dot serialization |
| toGXL |
Methods for GXL manipulations in package graph |
| toGXL,graphNEL-method |
Class "graphNEL" |
| toGXL-methods |
Methods for GXL manipulations in package graph |