Related papers: Sequence Reconstruction over the Deletion Channel
Nanopore sequencers are emerging as promising new platforms for high-throughput sequencing. As with other technologies, sequencer errors pose a major challenge for their effective use. In this paper, we present a novel information theoretic…
The problem of reconstructing strings from their substring spectra has a long history and in its most simple incarnation asks for determining under which conditions the spectrum uniquely determines the string. We study the problem of coded…
Stopping sets play a crucial role in failure events of iterative decoders over a binary erasure channel (BEC). The $\ell$-th stopping redundancy is the minimum number of rows in the parity-check matrix of a code, which contains no stopping…
This paper considers a problem that relates to the theories of covering arrays, permutation patterns, Vapnik-Chervonenkis (VC) classes, and probability thresholds. Specifically, we want to find the number of subsets of [n]:={1,2,....,n} we…
This paper considers the model problem of reconstructing an object from incomplete frequency samples. Consider a discrete-time signal $f \in \C^N$ and a randomly chosen set of frequencies $\Omega$ of mean size $\tau N$. Is it possible to…
For the emerging Internet of Things (IoT), one of the most critical problems is the real-time reconstruction of signals from a set of aged measurements. During the reconstruction, distortion occurs between the observed signal and the…
In the trace reconstruction problem, one attempts to reconstruct a fixed but unknown string $x$ of length $n$ from a given number of traces $\tilde{x}$ drawn iid from the application of a noisy process (such as the deletion channel) to $x$.…
Given a set of samples, a few of them being possibly saturated, we propose an efficient algorithm in order to cancel saturation while reconstructing band-limited signals. Our method satisfies a minimum-loss constraint and relies on…
Given a probability distribution $\mathcal{D}$ over the non-negative integers, a $\mathcal{D}$-repeat channel acts on an input symbol by repeating it a number of times distributed as $\mathcal{D}$. For example, the binary deletion channel…
We study the trace reconstruction problem for spider graphs. Let $n$ be the number of nodes of a spider and $d$ be the length of each leg, and suppose that we are given independent traces of the spider from a deletion channel in which each…
We propose a list-decoding scheme for reconstruction codes in the context of uniform-tandem-duplication noise, which can be viewed as an application of the associative memory model to this setting. We find the uncertainty associated with…
We prove several results on linear codes achieving list-recovery capacity. We show that random linear codes achieve list-recovery capacity with constant output list size (independent of the alphabet size and length). That is, over alphabets…
A convolutional code $\C$ over $\ZZ[D]$ is a $\ZZ[D]$-submodule of $\ZZN[D]$ where $\ZZ[D]$ stands for the ring of polynomials with coefficients in $\ZZ$. In this paper, we study the list decoding problem of these codes when the…
This work is motivated by the problem of error correction in bit-shift channels with the so-called $ (d,k) $ input constraints (where successive $ 1 $'s are required to be separated by at least $ d $ and at most $ k $ zeros, $ 0 \leq d < k…
We consider the problem of communicating over a channel that breaks the message block into fragments of random lengths, shuffles them out of order, and deletes a random fraction of the fragments. Such a channel is motivated by applications…
We investigate the problem of privately recovering a single erasure for Reed-Solomon codes with low communication bandwidths. For an $[n,k]_{q^\ell}$ code with $n-k\geq q^{m}+t-1$, we construct a repair scheme that allows a client to…
Most DNA sequencing technologies are based on the shotgun paradigm: many short reads are obtained from random unknown locations in the DNA sequence. A fundamental question, studied in arXiv:1203.6233, is what read length and coverage depth…
Locally decodable channel codes form a special class of error-correcting codes with the property that the decoder is able to reconstruct any bit of the input message from querying only a few bits of a noisy codeword. It is well known that…
In the problem of channel resolvability, where a given output probability distribution via a channel is approximated by transforming the uniform random numbers, characterizing the asymptotically minimum rate of the size of the random…
Consider the task of locating an unknown target point using approximate distance queries: in each round, a reconstructor selects a query point and receives a noisy version of its distance to the target. This problem arises naturally in…