Related papers: New Bounds for Circular Trace Reconstruction
Recent experiments have demonstrated the feasibility of storing digital information in macromolecules such as DNA and protein. However, the DNA storage channel is prone to errors such as deletions, insertions, and substitutions. During the…
We consider the following graph reconstruction problem: given an unweighted connected graph $G = (V,E)$ with visible vertex set $V$ and an oracle which takes two vertices $u,v \in V$ and returns the shortest path distance between $u$ and…
Sparse recovery is widely applied in many fields, since many signals or vectors can be sparsely represented under some frames or dictionaries. Most of fast algorithms at present are based on solving $l^0$ or $l^1$ minimization problems and…
Particle tracking in biological imaging is concerned with reconstructing the trajectories, locations, or velocities of the targeting particles. The standard approach of particle tracking consists of two steps: first reconstructing…
Based on unique decoding of the polynomial residue code with non-pairwise coprime moduli, a polynomial with degree less than that of the least common multiple (lcm) of all the moduli can be accurately reconstructed when the number of…
This paper studies sequential methods for recovery of sparse signals in high dimensions. When compared to fixed sample size procedures, in the sparse setting, sequential methods can result in a large reduction in the number of samples…
The classic string indexing problem is to preprocess a string S into a compact data structure that supports efficient pattern matching queries. Typical queries include existential queries (decide if the pattern occurs in S), reporting…
Linear sketching and recovery of sparse vectors with randomly constructed sparse matrices has numerous applications in several areas, including compressive sensing, data stream computing, graph sketching, and combinatorial group testing.…
In this paper, we study binary constrained codes that are resilient to bit-flip errors and erasures. In our first approach, we compute the sizes of constrained subcodes of linear codes. Since there exist well-known linear codes that achieve…
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…
In this paper we propose a new fast Fourier transform to recover a real nonnegative signal ${\bf x}$ from its discrete Fourier transform. If the signal ${\mathbf x}$ appears to have a short support, i.e., vanishes outside a support interval…
Assuming iterative decoding for binary erasure channels (BECs), a novel tree-based technique for upper bounding the bit error rates (BERs) of arbitrary, finite low-density parity-check (LDPC) codes is provided and the resulting bound can be…
We study the problem of reconstructing an unknown point in $\mathbb{R}^d$ from approximate linear queries. This setting arises naturally in applications ranging from low-dimensional remote sensing and signal recovery to high-dimensional…
Recently it was shown that, if the subtree and chain reduction rules have been applied exhaustively to two unrooted phylogenetic trees, the reduced trees will have at most 15k-9 taxa where k is the TBR (Tree Bisection and Reconnection)…
Recurrent Neural Networks (RNNs) are used in state-of-the-art models in domains such as speech recognition, machine translation, and language modelling. Sparsity is a technique to reduce compute and memory requirements of deep learning…
When the state space of a discrete state space positive recurrent Markov chain is infinite or very large, it becomes necessary to truncate the state space in order to facilitate numerical computation of the stationary distribution. This…
Suppose a graph $G$ is stochastically created by uniformly sampling vertices along a line segment and connecting each pair of vertices with a probability that is a known decreasing function of their distance. We ask if it is possible to…
We present a novel approach for recovering a sparse signal from cross-correlated data. Cross-correlations naturally arise in many fields of imaging, such as optics, holography and seismic interferometry. Compared to the sparse signal…
This study investigates whether reoptimization can help in solving the closest substring problem. We are dealing with the following reoptimization scenario. Suppose, we have an optimal l-length closest substring of a given set of sequences…
In this paper, we investigate the problem of designing $(n, N; \mathcal{B})$-reconstruction codes for $N\in \{14,11,9,5\}$, where $\mathcal{B}$ is the single-deletion single-substitution ball function that maps a sequence to the set of all…