Related papers: Extending de Bruijn sequences to larger alphabets
A linear chord diagram of size $n$ is a partition of the set $\{1,2,\cdots,2n\}$ into sets of size two, called chords. From a table showing the number of linear chord diagrams of degree $n$ such that every chord has length at least $k$, we…
Motivation: Working with a large number of genomes simultaneously is of great interest in genetic population and comparative genomics research. Bubbles discovery in multi-genomes coloured de bruijn graph for de novo genome assembly is a…
A universal cycle, or u-cycle, for a given set of words is a circular word that contains each word from the set exactly once as a contiguous subword. The celebrated de Bruijn sequences are a particular case of such a u-cycle, where a set in…
In this paper we consider the problem to reconstruct a $k$-uniform hypergraph from its line graph. In general this problem is hard. We solve this problem when the number of hyperedges containing any pair of vertices is bounded. Given an…
In this article, we discuss when one can extend an r-regular graph to an r + 1 regular by adding edges. Different conditions on the num- ber of vertices n and regularity r are developed. We derive an upper bound of r, depending on n, for…
In 1972 Mykkeltveit proved that the maximum number of vertex-disjoint cycles in the de Bruijn graphs of order $n$ is attained by the pure cycling register rule, as conjectured by Golomb. We generalize this result to the tensor product of…
Let w be a binary string and let a_w (n) be the number of occurrences of the word w in the binary expansion of n. As usual we let s(n) denote the Stern sequence; that is, s(0)=0, s(1)=1, and for n >= 1, s(2n)=s(n) and s(2n+1)=s(n)+s(n+1).…
We give an upper bound on the number of cycles in a simple graph in terms of its degree sequence, and apply this bound to resolve several conjectures of Kir\'aly and Arman and Tsaturian and to improve upper bounds on the maximum number of…
We suggest a new point of view on de Bruijn graphs and their subgraphs based on using circular words rather than linear ones.
The goal of this paper is to solve Problem 481 from the list of research problems in the special issue of Discrete Mathematics dedicated to the Banff International Research Station workshop on "Generalizations of de Bruijn Cycles and Gray…
We devise an algorithm that approximately computes the number of paths of length $k$ in a given directed graph with $n$ vertices up to a multiplicative error of $1 \pm \varepsilon$. Our algorithm runs in time $\varepsilon^{-2} 4^k(n+m)…
A $k$-defective clique of an undirected graph $G$ is a subset of its vertices that induces a nearly complete graph with a maximum of $k$ missing edges. The maximum $k$-defective clique problem, which asks for the largest $k$-defective…
First, we study the linear equations in general. Second, we focus our attention in periodic sequences over finite fields and de Bruijn directed graph.
DNA labeling is a tool in molecular biology and biotechnology to visualize, detect, and study DNA at the molecular level. In this process, a DNA molecule is labeled by a set of specific patterns, referred to as labels, and is then imaged.…
The graph of overlapping permutations is defined in a way analogous to the De Bruijn graph on strings of symbols. That is, for every permutation $\pi = \pi_{1} \pi_{2} ... \pi_{n+1}$ there is a directed edge from the standardization of…
To render a sequence testable, namely capable of identifying and detecting errors, it is necessary to apply a transformation that increases its length by introducing statistical dependence among symbols, as commonly exemplified by the…
Sequence theories are an extension of theories of strings with an infinite alphabet of letters, together with a corresponding alphabet theory (e.g. linear integer arithmetic). Sequences are natural abstractions of extendable arrays, which…
A superpermutation is a sequence that contains every permutation of $n$ distinct symbols as a contiguous substring. For instance, a valid example for three symbols is a sequence that contains all six permutations. This paper introduces a…
A successive vertex ordering of a graph is a linear ordering of its vertices in which every vertex except the first has at least one neighbour appearing earlier. Such orderings arise naturally in incremental growth and…
To investigate hyperbinary expansions of a nonnegative integer~$n$, an edge-labeled directed graph $A(n)$ has recently been introduced. After pointing out some new simple facts about its cyclomatic number, we give a relatively simple…