igraph: transitivity – R documentation

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transitivity

Transitivity of a graph

Description

Transitivity measures the probability that the adjacent vertices of a vertex are connected. This is sometimes also called the clustering coefficient.

Usage

transitivity(
  graph,
  type = c("undirected", "global", "globalundirected", "localundirected", "local",
    "average", "localaverage", "localaverageundirected", "barrat", "weighted"),
  vids = NULL,
  weights = NULL,
  isolates = c("NaN", "zero")
)

Arguments

`graph`	The graph to analyze.
`type`	The type of the transitivity to calculate. Possible values: "global" The global transitivity of an undirected graph (directed graphs are considered as undirected ones as well). This is simply the ratio of the triangles and the connected triples in the graph. For directed graphs the direction of the edges is ignored. "local" The local transitivity of an undirected graph, this is calculated for each vertex given in the `vids` argument. The local transitivity of a vertex is the ratio of the triangles connected to the vertex and the triples centered on the vertex. For directed graph the direction of the edges is ignored. Note that calculations do not work reliably in non-simple graphs, and since the presence of mutual edges in a directed graph becomes non-simple when treated as undirected, therefore it is advised to avoid using this function on non-simple and/or directed graphs. igraph prints a warning in these cases; the warning will be turned into an error in igraph 1.3.0. "undirected" This is the same as `global`. "globalundirected" This is the same as `global`. "localundirected" This is the same as `local`. "barrat" The weighted transitivity as defined A. Barrat. See details below. "weighted" The same as `barrat`.
`vids`	The vertex ids for the local transitivity will be calculated. This will be ignored for global transitivity types. The default value is `NULL`, in this case all vertices are considered. It is slightly faster to supply `NULL` here than `V(graph)`.
`weights`	Optional weights for weighted transitivity. It is ignored for other transitivity measures. If it is `NULL` (the default) and the graph has a `weight` edge attribute, then it is used automatically.
`isolates`	Character scalar, defines how to treat vertices with degree zero and one. If it is ‘`NaN`’ then they local transitivity is reported as `NaN` and they are not included in the averaging, for the transitivity types that calculate an average. If there are no vertices with degree two or higher, then the averaging will still result `NaN`. If it is ‘`zero`’, then we report 0 transitivity for them, and they are included in the averaging, if an average is calculated.

Details

Note that there are essentially two classes of transitivity measures, one is a vertex-level, the other a graph level property.

There are several generalizations of transitivity to weighted graphs, here we use the definition by A. Barrat, this is a local vertex-level quantity, its formula is

weighted C_i = 1/s_i 1/(k_i-1) sum( (w_ij+w_ih)/2 a_ij a_ih a_jh, j, h)

s_i is the strength of vertex i, see strength, a_ij are elements of the adjacency matrix, k_i is the vertex degree, w_ij are the weights.

This formula gives back the normal not-weighted local transitivity if all the edge weights are the same.

The barrat type of transitivity does not work for graphs with multiple and/or loop edges. If you want to calculate it for a directed graph, call as.undirected with the collapse mode first.

Value

For ‘global’ a single number, or NaN if there are no connected triples in the graph.

For ‘local’ a vector of transitivity scores, one for each vertex in ‘vids’.

Author(s)

Gabor Csardi csardi.gabor@gmail.com

References

Wasserman, S., and Faust, K. (1994). Social Network Analysis: Methods and Applications. Cambridge: Cambridge University Press.

Alain Barrat, Marc Barthelemy, Romualdo Pastor-Satorras, Alessandro Vespignani: The architecture of complex weighted networks, Proc. Natl. Acad. Sci. USA 101, 3747 (2004)

Examples

g <- make_ring(10)
transitivity(g)
g2 <- sample_gnp(1000, 10/1000)
transitivity(g2)   # this is about 10/1000

# Weighted version, the figure from the Barrat paper
gw <- graph_from_literal(A-B:C:D:E, B-C:D, C-D)
E(gw)$weight <- 1
E(gw)[ V(gw)[name == "A"] %--% V(gw)[name == "E" ] ]$weight <- 5
transitivity(gw, vids="A", type="local")
transitivity(gw, vids="A", type="weighted")

# Weighted reduces to "local" if weights are the same
gw2 <- sample_gnp(1000, 10/1000)
E(gw2)$weight <- 1
t1 <- transitivity(gw2, type="local")
t2 <- transitivity(gw2, type="weighted")
all(is.na(t1) == is.na(t2))
all(na.omit(t1 == t2))

igraph

Network Analysis and Visualization

v1.2.10

GPL (>= 2)

Authors

See AUTHORS file.

Initial release