Related papers: Single-Deletion Single-Substitution Correcting Cod…
We study the application of polar codes in deletion channels by analyzing the cascade of a binary erasure channel (BEC) and a deletion channel. We show how polar codes can be used effectively on a BEC with a single deletion, and propose a…
We consider the zero-error capacity of deletion channels. Specifically, we consider the setting where we choose a codebook ${\cal C}$ consisting of strings of $n$ bits, and our model of the channel corresponds to an adversary who may delete…
Locally repairable codes enables fast repair of node failure in a distributed storage system. The code symbols in a codeword are stored in different storage nodes, such that a disk failure can be recovered by accessing a small fraction of…
We present the first known efficient decoding algorithm for correcting multiple insertion-deletion errors in Helberg codes and their non-binary generalizations, extending a known algorithm for correcting multiple deletion errors.
The coded trace reconstruction problem asks to construct a code $C\subset \{0,1\}^n$ such that any $x\in C$ is recoverable from independent outputs ("traces") of $x$ from a binary deletion channel (BDC). We present binary codes of rate…
Finding deletion-correcting codes of maximum size has been an open problem for over 70 years, even for a single deletion. In this paper, we propose a novel approach for constructing deletion-correcting codes. A code is a set of sequences…
Error-correcting codes over sets, with applications to DNA storage, are studied. The DNA-storage channel receives a set of sequences, and produces a corrupted version of the set, including sequence loss, symbol substitution, symbol…
We present a finite blocklength performance bound for a DNA storage channel with insertions, deletions, and substitutions. The considered bound -- the dependency testing (DT) bound, introduced by Polyanskiy et al. in 2010 -- provides an…
Storing digital data in synthetic DNA faces challenges in ensuring data reliability in the presence of edit errors--deletions, insertions, and substitutions--that occur randomly during various stages of the storage process. Current…
This paper considers a binary channel with deletions. We derive two close form upper bound on the capacity of binary deletion channel. The first upper bound is based on computing the capacity of an auxiliary channel and we show how the…
Tandem duplication in DNA is the process of inserting a copy of a segment of DNA adjacent to the original position. Motivated by applications that store data in living organisms, Jain {\em et al.} (2016) proposed the study of codes that…
DNA storage systems face significant challenges, including insertion, deletion, and substitution (IDS) errors. Therefore, designing effective synchronization codes, i.e., codes capable of correcting IDS errors, is essential for DNA storage…
We generalize Helberg's number-theoretic construction of multiple insertion-deletion correcting binary codes to non-binary alphabets and describe a linear decoding algorithm for correcting multiple deletions.
In this work, we study the problem of list decoding of insertions and deletions. We present a Johnson-type upper bound on the maximum list size. The bound is meaningful only when insertions occur. Our bound implies that there are binary…
Motivated by DNA-based storage applications, we study the problem of reconstructing a coded sequence from multiple traces. We consider the model where the traces are outputs of independent deletion channels, where each channel deletes each…
Composite DNA is a recent novel method to increase the information capacity of DNA-based data storage above the theoretical limit of 2 bits/symbol. In this method, every composite symbol does not store a single DNA nucleotide but a mixture…
In this work, we investigate a challenging problem, which has been considered to be an important criterion in designing codewords for DNA computing purposes, namely secondary structure avoidance in single-stranded DNA molecules. In short,…
The process of DNA-based data storage (DNA storage for short) can be mathematically modelled as a communication channel, termed DNA storage channel, whose inputs and outputs are sets of unordered sequences. To design error correcting codes…
In this work, we study linear error-correcting codes against adversarial insertion-deletion (insdel) errors, a topic that has recently gained a lot of attention. We construct linear codes over $\mathbb{F}_q$, for…
Motivated by applications to DNA-storage, flash memory, and magnetic recording, we study perfect burst-correcting codes for the limited-magnitude error channel. These codes are lattices that tile the integer grid with the appropriate error…