global_persistence {persistence} | R Documentation |
global persistence
Description
Given a partition of the graph vertices, it calculates the global persistence as the sum of the persistences of the single clusters. Persistence can be referred to the null-adjusted o to the probability.
Usage
global_persistence(vertex, edge_list, membership, H0 = TRUE)
Arguments
vertex |
the vertices of the graph, whose label are integers and they must be consistent with the edge sets. |
edge_list |
the graph edge list in the form of an integer matrix with two columns. |
membership |
An integer vector representing the vertex membership: x_i = k if i in C_k. |
H0 |
If true, it calculates the null-adjusted persistence, if false, the persistence probability. |
Value
value A list containing the following:
- value
The global persistence of the partition.
- clusters_value
The local persistence of each cluster. If for some k we have v_k = NaN, then C_k is empty in the input membership.
Examples
library(persistence)
library(igraph)
edg = c(1, 2, 1, 3, 1, 4, 2, 3, 3, 4, 4, 5, 5, 6, 5, 7, 5, 8, 5, 9, 6, 7, 6, 8, 7, 9, 8, 9)
print(length(edg) / 2.0)
vertex = unique(edg)
edg = t(matrix(as.integer(edg), nrow = 2 ))
rete <- graph_from_edgelist(edg, directed = FALSE) # I graph this matrix
plot(rete)
membership = c(1, 1, 1, 1, 2, 2, 2, 2, 2)
v1 = global_persistence(vertex, edg, membership, H0=TRUE)
print(paste("global null-adjusted persistence: ", v1$value))
print(paste("null-adjusted persistence per cluster: ", v1$clusters_value))
[Package persistence version 0.1.0 Index]