Related papers: On de Bruijn Covering Sequences and Arrays

A (non-circular) de Bruijn sequence w of order n is a word such that every word of length n appears exactly once in w as a factor. In this paper, we generalize the concept to a multi-shift setting: a multi-shift de Bruijn sequence tau(m,n)…

An $(n, k, d, \alpha, \beta, M)$-ERRC (exact-repair regenerating code) is a collection of $n$ nodes used to store a file. For a file of total size $M$, each node stores $\alpha$ symbols, any $k$ nodes recover the file, and any $d$ nodes…

Two vectors $x,y$ in $\mathbb{Z}_g^n$ are $ qualitatively$ $ independent$ if for all pairs $(a,b)\in \mathbb{Z}_g\times \mathbb{Z}_g$, there exists $i\in \{1,2,\ldots,n\}$ such that $(x_i,y_i)=(a,b)$. A covering array on a graph $G$,…

A covering code is a subset $\mathcal{C} \subseteq \{0,1\}^n$ with the property that any $z \in \{0,1\}^n$ is close to some $c \in \mathcal{C}$ in Hamming distance. For every $\epsilon,\delta>0$, we show a construction of a family of codes…

Range minimum queries (RMQs) are fundamental operations with widespread applications in database management, text indexing and computational biology. While many space-efficient data structures have been designed for RMQs on arrays with…

The classical way of extending an $[n, k, d]$ linear code $\C$ is to add an overall parity-check coordinate to each codeword of the linear code $\C$. This extended code, denoted by $\overline{\C}(-\bone)$ and called the standardly extended…

Covering arrays for words of length $t$ over a $d$ letter alphabet are $k \times n$ arrays with entries from the alphabet so that for each choice of $t$ columns, each of the $d^t$ $t$-letter words appears at least once among the rows of the…

In this work, constructions of ordered covering arrays are discussed and applied to obtain new upper bounds on covering codes in Rosenbloom-Tsfasman spaces (RT spaces), improving or extending some previous results.

Nonlinear complexity, as an important measure for assessing the randomness of sequences, is defined as the length of the shortest feedback shift registers that can generate a given sequence. In this paper, the structure of n-periodic binary…

We give a framework for generalizing LDPC code constructions that use Transversal Designs or related structures such as mutually orthogonal Latin squares. Our construction offers a broader range of code lengths and codes rates. Similar…

We give new lower bounds for $M(n,d)$, for various positive integers $n$ and $d$ with $n>d$, where $M(n,d)$ is the largest number of permutations on $n$ symbols with pairwise Hamming distance at least $d$. Large sets of permutations on $n$…

A frequency $n$-cube $F^n(q;l_0,...,l_{m-1})$ is an $n$-dimensional $q$-by-...-by-$q$ array, where $q = l_0+...+l_{m-1}$, filled by numbers $0,...,m-1$ with the property that each line contains exactly $l_i$ cells with symbol $i$, $i =…

In this work, we study the minimum/stopping distance of array low-density parity-check (LDPC) codes. An array LDPC code is a quasi-cyclic LDPC code specified by two integers q and m, where q is an odd prime and m <= q. In the literature,…

The high-throughput short-reads RNA-seq protocols often produce paired-end reads, with the middle portion of the fragments being unsequenced. We explore if the full-length fragments can be computationally reconstructed from the sequenced…

Let $A(n, d)$ denote the maximum size of a binary code of length $n$ and minimum Hamming distance $d$. Studying $A(n, d)$, including efforts to determine it as well to derive bounds on $A(n, d)$ for large $n$'s, is one of the most…

A d-biclique cover of a graph G is a collection of bicliques of G such that each edge of G is in at least d of the bicliques. The number of bicliques in a minimum d-biclique cover of G is called the d-biclique covering number of G and is…

An asymmetric binary covering code of length n and radius R is a subset C of the n-cube Q_n such that every vector x in Q_n can be obtained from some vector c in C by changing at most R 1's of c to 0's, where R is as small as possible.…

An $(n,k,d)$ cooperative regenerating code provides the optimal-bandwidth repair for any $t~(t\!>\!1)$ node failures in a cooperative way. In particular, an MSCR (minimum storage cooperative regenerating) code retains the same storage…

Covers being one of the most popular form of regularities in strings, have drawn much attention over time. In this paper, we focus on the problem of linear time inference of strings from cover arrays using the least sized alphabet possible.…

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…