clusterGraph-class: Class "clusterGraph"

In pshannon-bioc/graph: graph: A package to handle graph data structures

Description

A cluster graph is a special sort of graph for clustered data. Each cluster forms a completely connected subgraph. Three are no edges between clusters.

Objects from the Class

Objects can be created by calls of the form new("clusterGraph", ...).

Slots

clusters:

Object of class "list" a list of the labels of the elements, one element of the list for each cluster.

Extends

Class "graph", directly.

Methods

connComp

signature(object = "clusterGraph"): find the connected components; simply the clusters in this case.

acc

signature(object = "clusterGraph"): find the accessible nodes from the supplied node.

adj

signature(object = "clusterGraph"): find the adjacent nodes to the supplied node.

nodes

signature(object = "clusterGraph"): return the nodes.

nodes<-

signature(object="clusterGraph", value="character"): replace the node names with the new labels given in value.

numNodes

signature(object = "clusterGraph"): return the number of nodes.

edgeWeights

Return a list of edge weights in a list format similar to the edges method.

edgeL

signature(graph = "clusterGraph"): A method for obtaining the edge list.

coerce

signature(from = "clusterGraph", to = "matrix"): Convert the clusterGraph to an adjacency matrix. Currently, weights are ignored. The conversion assumes no self-loops.

Author(s)

R. Gentleman

See Also

graph-class, distGraph-class

Examples

  cG1 <- new("clusterGraph", clusters=list(a=c(1,2,3), b=c(4,5,6)))
  cG1
  acc(cG1, c("1", "2"))

pshannon-bioc/graph documentation built on May 26, 2019, 10:32 a.m.