Introduction to oaqc
This package provides an efficient algorithm to calculate for a given graph the orbit-aware quad census. More precisely the frequency distribution of all induced and non-induced non-isomorphic four node subgraphs, i.e. quads, on a node and edge level; see the figure below for the relation between orbit and quad.
Input
The input can either be an edgelist (matrix or data.frame) or a graph Object (‘igraph’)
Despite the input format the graph should not contain loops or multi-edges and the vertex indices have to lie in range [0,n-1) with n denoting the number of vertices in the graph. Note that if the smallest index is 1 the algorithm will create an isolated vertex with index 0.
Calculating the orbit-aware quad census
The following code exemplifies the use of this package.
library(oaqc)
### k4, pure R
k4 <- data.frame(
source = c(0, 0, 0, 1, 1, 2),
target = c(1, 2, 3, 2, 3, 3)
)
k4orbits <- oaqc(k4, non_ind_freq = FALSE, file = "")
# print(k4orbits)In order to calculate the non-induced frequencies as well just set
the corresponding flag to TRUE.
Since the orbit-aware frequencies can be rather large integers, which can cause some problems with R, the results can be directly written to a file.