A B C D E F G H I J L M N P R S T U V W misc
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,graphNEL,numeric-method | Class "graphNEL" |
addNode | addNode |
addNode,character,distGraph,list-method | addNode |
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 | Coercing matrices to graphs |
apopAttrs | KEGG apoptosis pathway graph |
apopGraph | KEGG apoptosis pathway graph |
apopLocusLink | KEGG apoptosis pathway graph |
aveNumEdges | Calculate the average number of edges in a graph |
biocRepos | A graph representing the Bioconductor package repository |
bNode | Class "gEdge" |
bNode,gEdge-method | Class "gEdge" |
boundary | Returns the Boundary between a Graph and a SubGraph |
buildRepDepGraph | Functionality to manage repository dependency graphs |
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,graphNEL-method | Class "graphNEL" |
clusterGraph-class | Class "clusterGraph" |
coerce | Class "graphNEL" |
coerce,generalGraph-method | Class "generalGraph" ~~~ |
coerce,graphNEL,generalGraph-method | Class "graphNEL" |
coerce,graphNEL,matrix-method | Coercing matrices to graphs |
coerce,matrix,graphNEL-method | Coercing matrices to graphs |
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 |
contents | Class "hashtable" |
contents,hashtable,ANY-method | Class "hashtable" |
contents,hashtable-method | Class "hashtable" |
degree | Class "graph" |
degree,graph,ANY-method | Class "graph" |
degree,graph,missing-method | Class "graph" |
DFS | Depth First Search |
DFS,graph,character-method | Depth First Search |
dfs,graph-method | Class "graph" |
Dist | Class "distGraph" |
Dist,distGraph-method | Class "distGraph" |
distGraph-class | Class "distGraph" |
dumpGXL | Methods for GXL manipulations in package graph |
dumpGXL,connection-method | Methods for GXL manipulations in package graph |
dumpGXL-methods | Methods for GXL manipulations in package graph |
duplicatedEdges | duplicatedEdges |
edgeID | Class "gEdge" |
edgeID,gEdge-method | Class "gEdge" |
edgeL | Class "graphNEL" |
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" |
edgeOrder | Class "gNode" |
edgeOrder,gNode-method | Class "gNode" |
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,graphNEL,character-method | Class "graphNEL" |
edges,graphNEL,missing-method | Class "graphNEL" |
edgeWeights | Retrieve the edge weights for specified indices. |
edgeWeights,clusterGraph-method | Class "clusterGraph" |
edgeWeights,distGraph-method | Class "distGraph" |
edgeWeights,graphNEL-method | Class "graphNEL" |
eNode | Class "gEdge" |
eNode,gEdge-method | Class "gEdge" |
eWV | Compute an Edge Matrix or weight vector for a Graph |
file-class | Methods for GXL manipulations in package graph |
fromEdges | Class "gNode" |
fromEdges,gNode-method | Class "gNode" |
fromEdges<-,gNode-method | Class "gNode" |
fromGXL | Methods for GXL manipulations in package graph |
fromGXL,connection-method | Methods for GXL manipulations in package graph |
fromGXL-methods | Methods for GXL manipulations in package graph |
ftM2adjM | Coercing matrices to graphs |
gEdge-class | Class "gEdge" |
generalGraph-class | Class "generalGraph" ~~~ |
gNode-class | Class "gNode" |
graph-class | Class "graph" |
graph2SparseM | Coercion methods between graphs and sparse matrices |
graphExamples | A List Of Example Graphs |
graphID-class | Unique Graph Identifications |
graphNEL-class | Class "graphNEL" |
GXL | Methods for GXL manipulations in package graph |
gxlTreeNEL | Methods for GXL manipulations in package graph |
hash | Class "hashtable" |
hash,ANY,ANY,hashtable-method | Class "hashtable" |
hashtable-class | Class "hashtable" |
idenv | Functions to associate identifiers with graph components. |
IMCA | KEGG Integrin Mediated Cell Adhesion graph |
IMCAAttrs | KEGG Integrin Mediated Cell Adhesion graph |
IMCAGraph | KEGG Integrin Mediated Cell Adhesion graph |
IMCALocusLink | KEGG Integrin Mediated Cell Adhesion graph |
inEdges | inEdges |
inEdges,character,graphNEL-method | Class "graphNEL" |
inEdges,graphNEL,missing-method | inEdges |
inEdges,missing,graphNEL-method | Class "graphNEL" |
initialize | Class "graphNEL" |
initialize,generalGraph-method | Class "generalGraph" ~~~ |
initialize,graphNEL-method | Class "graphNEL" |
initialize,hashtable-method | Class "hashtable" |
intersection | Class "graph" |
intersection,graph,graph-method | Class "graph" |
isConnected | Class "graph" |
isConnected,graph-method | Class "graph" |
join | Class "graph" |
join,graph,graph-method | Class "graph" |
label | Class "gNode" |
label,gNode-method | Class "gNode" |
listEdges | List the Edges of a Graph |
mostEdges | Find the node in a graph with the greatest number of edges |
NELhandler | Methods for GXL manipulations in package graph |
newID | Functions to associate identifiers with graph components. |
nodeID | Class "gNode" |
nodeID,gNode-method | Class "gNode" |
nodes | Class "graphNEL" |
nodes,clusterGraph-method | Class "clusterGraph" |
nodes,distGraph-method | Class "distGraph" |
nodes,graphNEL-method | Class "graphNEL" |
nodes<-,graphNEL,character-method | Class "graphNEL" |
nodeType | Class "gNode" |
nodeType,gNode-method | Class "gNode" |
nullgraphID | Functions to associate identifiers with graph components. |
numEdges | Calculate the number of edges in a graph |
numNodes | Class "graph" |
numNodes,clusterGraph-method | Class "clusterGraph" |
numNodes,distGraph-method | Class "distGraph" |
numNodes,graph-method | Class "graph" |
numNodes,graphNEL-method | Class "graphNEL" |
numNoEdges | Calculate the number of nodes that have an edge list of NULL |
pathWeights | Compute an Edge Matrix or weight vector for a Graph |
pkgInstOrder | Functionality to manage repository dependency graphs |
randomEGraph | Random Edge Graph |
randomGraph | Random Graph |
randomNodeGraph | Generate a Graph with specified degree distribution. |
removeEdge | removeEdge |
removeEdge,character,character,graphNEL-method | Class "graphNEL" |
removeNode | removeNode |
removeNode,character,graphNEL-method | Class "graphNEL" |
show | Class "graphNEL" |
show,clusterGraph-method | Class "clusterGraph" |
show,distGraph-method | Class "distGraph" |
show,graphNEL-method | Class "graphNEL" |
simpleEdge-class | Class "simpleEdge". |
sparseM2Graph | Coercion methods between graphs and sparse matrices |
startids | Functions to associate identifiers with graph components. |
subGraph | Create a Subgraph |
subGraph,character,clusterGraph-method | Create a Subgraph |
subGraph,character,distGraph-method | Create a Subgraph |
subGraph,character,graphNEL-method | Create a Subgraph |
threshold | Class "distGraph" |
threshold,distGraph-method | Class "distGraph" |
toEdges | Class "gNode" |
toEdges,gNode-method | Class "gNode" |
toEdges<-,gNode-method | Class "gNode" |
toGXL | Methods for GXL manipulations in package graph |
toGXL,graphNEL-method | Class "graphNEL" |
toGXL-methods | Methods for GXL manipulations in package graph |
ugraph | Underlying Graph |
union | Class "graph" |
union,graph,graph-method | Class "graph" |
validateGXL | Methods for GXL manipulations in package graph |
validateGXL,connection-method | Methods for GXL manipulations in package graph |
validGraph | Test whether graph object is valid |
write.tlp | Write a graph object in a file in the Tulip format |
[.dist | Class "distGraph" |