Related papers: De Bruijn Cycles for Covering Codes
Non-overlapping codes have been studied for almost 60 years. In such a code, no proper, non-empty prefix of any codeword is a suffix of any codeword. In this paper, we study codes in which overlaps of certain specified sizes are forbidden.…
Cyclic codes are an interesting type of linear codes and have wide applications in communication and storage systems due to their efficient encoding and decoding algorithms. Inspired by the recent work on binary cyclic codes published in…
The de Bruijn graph $G_K$ of a set of strings $S$ is a key data structure in genome assembly that represents overlaps between all the $K$-length substrings of $S$. Construction and navigation of the graph is a space and time bottleneck in…
A new bound on the minimum distance of q-ary cyclic codes is proposed. It is based on the description by another cyclic code with small minimum distance. The connection to the BCH bound and the Hartmann--Tzeng (HT) bound is formulated…
We propose a construction of de Bruijn sequences by the cycle joining method from linear feedback shift registers (LFSRs) with arbitrary characteristic polynomial $f(x)$. We study in detail the cycle structure of the set $\Omega(f(x))$ that…
We introduce the notion of unavoidable (complete) sets of word patterns, which is a refinement for that of words, and study certain numerical characteristics for unavoidable sets of patterns. In some cases we employ the graph of pattern…
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…
A cover (or quasiperiod) of a string $S$ is a shorter string $C$ such that every position of $S$ is contained in some occurrence of $C$ as a substring. The notion of covers was introduced by Apostolico and Ehrenfeucht over 30 years ago…
Each positive increasing integer sequence $\{a_n\}_{n\geq 0}$ can serve as a numeration system to represent each non-negative integer by means of suitable coefficient strings. We analyse the case of $k$-generalized Fibonacci sequences…
Nearly perfect packing codes are those codes that meet the Johnson upper bound on the size of error-correcting codes. This bound is an improvement to the sphere-packing bound. A related bound for covering codes is known as the van Wee…
A code is called solid if, roughly speaking, any correctly-transmitted codeword in an arbitrarily corrupted string of codewords can still be decoded correctly and unambiguously. So-called variable-length solid codes, in which codewords may…
Free-space quantum key distribution requires to synchronize the transmitted and received signals. A timing and synchronization system for this purpose based on a de Bruijn sequence has been proposed and studied recently for a channel…
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.…
In 2007, Martinian and Trott presented codes for correcting a burst of erasures with a minimum decoding delay. Their construction employs [n,k] codes that can correct any burst of erasures (including wrap-around bursts) of length n-k. The…
Let $R=\mathbb{Z}_{4}[u]/\langle u^k\rangle=\mathbb{Z}_{4}+u\mathbb{Z}_{4}+\ldots+u^{k-1}\mathbb{Z}_{4}$ ($u^k=0$) where $k\in \mathbb{Z}^{+}$ satisfies $k\geq 2$. For any odd positive integer $n$, it is known that cyclic codes over $R$ of…
Universal cycles are generalizations of de Bruijn cycles and Gray codes that were introduced originally by Chung, Diaconis, and Graham in 1990. They have been developed by many authors since, for various combinatorial objects such as…
An identifying code in a graph is a subset of vertices having a nonempty and distinct intersection with the closed neighborhood of every vertex. We prove that the infimum density of any identifying code in $S_k$ (an infinite strip of $k$…
Completely regular codes with covering radius $\rho=1$ must have minimum distance $d\leq 3$. For $d=3$, such codes are perfect and their parameters are well known. In this paper, the cases $d=1$ and $d=2$ are studied and completely…
Let the root of the word $w$ be the smallest prefix $v$ of $w$ such that $w$ is a prefix of $vvv...$. $per(w)$ is the length of the root of $w$. For any $n\ge5$, an $n$-ary threshold word is a word $w$ such that for any factor (subword) $v$…
String matching is the problem of deciding whether a given $n$-bit string contains a given $k$-bit pattern. We study the complexity of this problem in three settings. Communication complexity. For small $k$, we provide near-optimal upper…