Related papers: Bounds for DNA codes with constant GC-content
This text contains some notes on the Griesmer bound. In particular, we give a geometric proof of the Griesmer bound for the generalized weights and show that a Solomon--Stiffler type construction attains it if the minimum distance is…
As DNA data storage moves closer to practical deployment, minimizing sequencing coverage depth is essential to reduce both operational costs and retrieval latency. This paper addresses the recently studied Random Access Problem, which…
This paper introduces a new family of reconstruction codes which is motivated by applications in DNA data storage and sequencing. In such applications, DNA strands are sequenced by reading some subset of their substrings. While previous…
Identifying palindromes in sequences has been an interesting line of research in combinatorics on words and also in computational biology, after the discovery of the relation of palindromes in the DNA sequence with the HIV virus. Efficient…
The coverage depth problem in DNA data storage is about minimizing the expected number of reads until all data is recovered. When they exist, MDS codes offer the best performance in this context. This paper focuses on the scenario where the…
This paper studies the cardinality of codes correcting insertions and deletions. We give improved upper and lower bounds on code size. Our upper bound is obtained by utilizing the asymmetric property of list decoding for insertions and…
DNA synthesis is considered as one of the most expensive components in current DNA storage systems. In this paper, focusing on a common synthesis machine, which generates multiple DNA strands in parallel following a fixed supersequence,we…
So far, there is no polynomial-time list decoding algorithm (beyond half the minimum distance) for Gabidulin codes. These codes can be seen as the rank-metric equivalent of Reed--Solomon codes. In this paper, we provide bounds on the list…
In this paper we prove new lower bounds for the maximal size of permutation codes by connecting the theory of permutation codes with the theory of linear block codes. More specifically, using the columns of a parity check matrix of an…
We investigate the minimum distance of structured binary Low-Density Parity-Check (LDPC) codes whose parity-check matrices are of the form $[\mathbf{C} \vert \mathbf{M}]$ where $\mathbf{C}$ is circulant and of column weight $2$, and…
A code of length $n$ is said to be (combinatorially) $(\rho,L)$-list decodable if the Hamming ball of radius $\rho n$ around any vector in the ambient space does not contain more than $L$ codewords. We study a recently introduced class of…
The d-neighborhood of a word W in the Levenshtein distance is the set of all words at distance at most d from W. Generating the neighborhood of a word W, or related sets of words such as the condensed neighborhood or the super-condensed…
The quantum Hamming bound was originally put forward as an upper bound on the parameters of nondegenerate quantum codes, but over the past few decades much work has been done to show that many degenerate quantum codes must also obey this…
This paper considers the achievability and converse bounds on the maximal channel coding rate at a given blocklength and error probability over AWGN channels. The problem stems from covert communication with Gaussian codewords. By…
We consider a range of simply stated dynamic data structure problems on strings. An update changes one symbol in the input and a query asks us to compute some function of the pattern of length $m$ and a substring of a longer text. We give…
We consider the problem of digitalizing Euclidean segments. Specifically, we look for a constructive method to connect any two points in $\mathbb{Z}^d$. The construction must be {\em consistent} (that is, satisfy the natural extension of…
Secure codes are widely-studied combinatorial structures which were introduced for traitor tracing in broadcast encryption. To determine the maximum size of such structures is the main research objective. In this paper, we investigate the…
In this paper, we present a new lower bound on the size of separating hash families of type {w_1^{q-1},w_2} where w_1 < w_2. Our result extends the paper by Guo et al. on binary frameproof codes. This bound compares well against known…
We study properties of rank metric and codes in rank metric over finite fields. We show that in rank metric perfect codes do not exist. We derive an existence bound that is the equivalent of the Gilbert--Varshamov bound in Hamming metric.…
Let $C$ be a linear code of length $n$ and dimension $k$ over the finite field $\mathbb{F}_{q^m}$. The trace code $\mathrm{Tr}(C)$ is a linear code of the same length $n$ over the subfield $\mathbb{F}_q$. The obvious upper bound for the…