Related papers: Sequence Reconstruction over the Deletion Channel
Correcting insertions/deletions as well as substitution errors simultaneously plays an important role in DNA-based storage systems as well as in classical communications. This paper deals with the fundamental task of constructing codes that…
The problem of reconstructing a sequence from the set of its length-$k$ substrings has received considerable attention due to its various applications in genomics. We study an uncoded version of this problem where multiple random sources…
The deletion channel is known to be a notoriously diffcult channel to design error-correction codes for. In spite of this difficulty, there are some beautiful code constructions which give some intuition about the channel and about what…
We consider the maximum coding rate achievable by uniformly-random codes for the deletion channel. We prove an upper bound that's within 0.1 of the best known lower bounds for all values of the deletion probability $d,$ and much closer for…
We study near optimal error correction codes for real-time communication. In our setup the encoder must operate on an incoming source stream in a sequential manner, and the decoder must reconstruct each source packet within a fixed playback…
We introduce the following natural generalization of trace reconstruction, parameterized by a deletion probability $\delta \in (0,1)$ and length $n$: There is a length $n$ string of probabilities, $S=p_1,\ldots,p_n,$ and each "trace" is…
In the deletion channel, an important problem is to determine the number of subsequences derived from a string $U$ of length $n$ when subjected to $t$ deletions. It is well-known that the number of subsequences in the setting exhibits a…
The deletion distance between two binary words $u,v \in \{0,1\}^n$ is the smallest $k$ such that $u$ and $v$ share a common subsequence of length $n-k$. A set $C$ of binary words of length $n$ is called a $k$-deletion code if every pair of…
Given a sequence $s_1$ of $n$ letters drawn i.i.d. from an alphabet of size $\sigma$ and a mutated substring $s_2$ of length $m < n$, we often want to recover the mutation history that generated $s_2$ from $s_1$. Modern sequence aligners…
We improve Levenshtein's upper bound for the cardinality of a code of length four that is capable of correcting single deletions over an alphabet of even size. We also illustrate that the new upper bound is sharp. Furthermore we construct…
This paper studies the problem of encoding messages into sequences which can be uniquely recovered from some noisy observations about their substrings. The observed reads comprise consecutive substrings with some given minimum overlap. This…
Motivated by DNA storage systems and 3D fingerprinting, this work studies the adversarial torn paper channel with edit errors. This channel first applies at most $t_e$ edit errors (i.e., insertions, deletions, and substitutions) to the…
We study the reconstruction problem of permutation sequences from their $k$-minors, which are subsequences of length $k$ with entries renumbered by $1,2,\ldots,k$ preserving order. We prove that the minimum number $k$ such that any…
Memoryless channels with deletion errors as defined by a stochastic channel matrix allowing for bit drop outs are considered in which transmitted bits are either independently deleted with probability $d$ or unchanged with probability…
Levenshtein introduced the problem of constructing $k$-deletion correcting codes in 1966, proved that the optimal redundancy of those codes is $O(k\log N)$, and proposed an optimal redundancy single-deletion correcting code (using the…
In this paper, a new problem of transmitting information over the adversarial insertion-deletion channel with feedback is introduced. Suppose that the encoder transmits $n$ binary symbols one-by-one over a channel, in which some symbols can…
In this paper, we propose a partitioning technique that decomposes a pair of sequences with overlapping $t$-deletion $s$-substitution balls into sub-pairs, where the $^{\leq}t$-burst-deletion balls of each sub-pair intersect. This…
The problem of reconstructing a source sequence with the presence of decoder side-information that is mis-synchronized to the source due to deletions is studied in a distributed source coding framework. Motivated by practical applications,…
We consider the problem of determining the zero-error list-decoding capacity of the $q/(q-1)$ channel studied by Elias (1988). The $q/(q-1)$ channel has input and output alphabet consisting of $q$ symbols, say, $Q = \{x_1,x_2,\ldots,…
Suppose we are given a vector $f$ in $\R^N$. How many linear measurements do we need to make about $f$ to be able to recover $f$ to within precision $\epsilon$ in the Euclidean ($\ell_2$) metric? Or more exactly, suppose we are interested…