De Bruijn graphs

De Bruijn graphs are labeled graphs representing the overlap of strings.

Usage

make_de_bruijn_graph(m, n)

de_bruijn_graph(...)

Arguments

m

Integer scalar, the size of the alphabet. See details below.

n

Integer scalar, the length of the labels. See details below.

...

Passed to make_de_bruijn_graph().

Value

A graph object.

Details

A de Bruijn graph represents relationships between strings. An alphabet of m letters are used and strings of length n are considered. A vertex corresponds to every possible string and there is a directed edge from vertex v to vertex w if the string of v can be transformed into the string of w by removing its first letter and appending a letter to it.

Please note that the graph will have m to the power n vertices and even more edges, so probably you don't want to supply too big numbers for m and n.

De Bruijn graphs have some interesting properties, please see another source, e.g. Wikipedia for details.

See also

make_kautz_graph(), make_line_graph()

Author

Gabor Csardi csardi.gabor@gmail.com

Examples

# de Bruijn graphs can be created recursively by line graphs as well
g <- make_de_bruijn_graph(2, 1)
make_de_bruijn_graph(2, 2)
#> IGRAPH f0a954e D--- 4 8 -- De-Bruijn graph 2-2
#> + attr: name (g/c), m (g/n), n (g/n)
#> + edges from f0a954e:
#> [1] 1->1 1->2 2->3 2->4 3->1 3->2 4->3 4->4
make_line_graph(g)
#> IGRAPH 057189d D--- 4 8 -- Line graph
#> + attr: name (g/c)
#> + edges from 057189d:
#> [1] 1->1 3->1 1->2 3->2 2->3 4->3 2->4 4->4