A package that implements some simple graph handling capabilities.
|Author||R. Gentleman, Elizabeth Whalen, W. Huber, S. Falcon|
|Date of publication||None|
|Maintainer||Bioconductor Package Maintainer <firstname.lastname@example.org>|
acc-methods: Methods for Accessibility Lists
adjacencyMatrix: Compute an Adjacency Matrix for a graphBAM object
adj-methods: Methods for finding the adjacency list for selected nodes.
apoptosisGraph: KEGG apoptosis pathway graph
attrData-class: Class "attrData"
attrDataItem-methods: Get and set attributes values for items in an attrData object
attrDefaults-methods: Get and set the default attributes of an attrData object
aveNumEdges: Calculate the average number of edges in a graph
biocRepos: A graph representing the Bioconductor package repository
boundary: Returns the Boundary between a Graph and a SubGraph
calcProb: Calculate the hypergeometric probability of the subgraph's...
calcSumProb: Calculate the probability that a subgraph has an unusual...
clusterGraph-class: Class "clusterGraph"
clusteringCoefficient-methods: Clustering coefficient of a graph
defunct: Defunct Functions in Package 'graph'
DFS: Depth First Search
distGraph-class: Class "distGraph"
edgeDataDefaults-methods: Get and set default attributes for the edges of a graph
edgeData-methods: Get and set attributes for the edges of a graph object
edgeMatrix: Compute an Edge Matrix or weight vector for a Graph
edgeSets: MultiGraph edgeSet data
edgeWeights: Retrieve the edge weights of a graph
fromGXL-methods: Methods for GXL manipulations in package graph
graph2SparseM: Coercion methods between graphs and sparse matrices
graphAM-class: Class "graphAM"
graphBAM-class: EXPERIMENTAL class "graphBAM"
graph-class: Class "graph"
graphExamples: A List Of Example Graphs
graphNEL-class: Class "graphNEL"
IMCA: KEGG Integrin Mediated Cell Adhesion graph
inEdges: Generic Method inEdges
internal: Variables used for internal purposes
isAdjacent-methods: Determine if nodes share an edge in a graph
isDirected-methods: Determine if a graph has directed or undirected edges
leaves: Find the leaves of a graph
listEdges: List the Edges of a Graph
MAPKsig: A graph encoding parts of the MAPK signaling pathway
matrix2Graph: Coercions between matrix and graph representations
mostEdges: Find the node in a graph with the greatest number of edges
multigraph: Class "multiGraph"
MultiGraph-class: EXPERIMENTAL class "MultiGraph"
nodeDataDefaults-methods: Get and set default attributes for the nodes of a graph
nodeData-methods: Get and set attributes for the nodes of a graph object
numNoEdges: Calculate the number of nodes that have an edge list of NULL
pancrCaIni: A graph encoding parts of the pancreatic cancer initiation...
randomEGraph: Random Edge Graph
randomGraph: Random Graph
randomNodeGraph: Generate Random Graph with Specified Degree Distribution
renderInfo-class: Class "renderInfo"
reverseEdgeDirections: Reverse the edges of a directed graph
settings: Graphical parameters and other settings
simpleEdge-class: Class "simpleEdge".
standardLabeling: Standard labeling of edges with integers
subGraph: Create a Subgraph
toDotR-methods: Methods for Function toDotR, using R to generate a dot...
toDotWithRI: Translate a graph to "dot" including rendering information
ugraph: Underlying Graph
validGraph: Test whether graph object is valid
write.tlp: Write a graph object in a file in the Tulip format