Related papers: Trace reconstruction of matrices and hypermatrices
We introduce a new variant of the $k$-deck problem, which in its traditional formulation asks for determining the smallest $k$ that allows one to reconstruct any binary sequence of length $n$ from the multiset of its $k$-length…
This work studies problems in data reconstruction, an important area with numerous applications. In particular, we examine the reconstruction of binary and non-binary sequences from synchronization (insertion/deletion-correcting) codes.…
Mean-based reconstruction is a fundamental, natural approach to worst-case trace reconstruction over channels with synchronization errors. It is known that $\exp(O(n^{1/3}))$ traces are necessary and sufficient for mean-based worst-case…
The problem of reconstructing a string from its error-prone copies, the trace reconstruction problem, was introduced by Vladimir Levenshtein two decades ago. While there has been considerable theoretical work on trace reconstruction,…
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 $x$.…
For a given $n$, what is the smallest number $k$ such that every sequence of length $n$ is determined by the multiset of all its $k$-subsequences? This is called the $k$-deck problem for sequence reconstruction, and has been generalized to…
A matrix is given in ``shredded'' form if we are presented with the multiset of rows and the multiset of columns, but not told which row is which or which column is which. The matrix is reconstructible if it is uniquely determined by this…
We consider the well-studied pattern counting problem: given a permutation $\pi \in \mathbb{S}_n$ and an integer $k > 1$, count the number of order-isomorphic occurrences of every pattern $\tau \in \mathbb{S}_k$ in $\pi$. Our first result…
Motivated by the philosophy and phenomenal success of compressed sensing, the problem of reconstructing a matrix from a sampling of its entries has attracted much attention recently. Such a problem can be viewed as an information-theoretic…
Pedigrees, or family trees, are graphs of family relationships that are used to study inheritance. A fundamental problem in computational biology is to find, for a pedigree with $n$ individuals genotyped at every site, a set of…
The reconstruction problem for permutations on $n$ elements from their erroneous patterns which are distorted by transpositions is presented in this paper. It is shown that for any $n \geq 3$ an unknown permutation is uniquely…
Matrix multiplication is a fundamental task in almost all computational fields, including machine learning and optimization, computer graphics, signal processing, and graph algorithms (static and dynamic). Twin-width is a natural complexity…
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…
How efficiently can we find an unknown graph using distance queries between its vertices? We assume that the unknown graph is connected, unweighted, and has bounded degree. The goal is to find every edge in the graph. This problem admits a…
Let $G$ be a $3$-connected ordered graph with $n$ vertices and $m$ edges. Let $\mathbf{p}$ be a randomly chosen mapping of these $n$ vertices to the integer range $\{1, 2,3, \ldots, 2^b\}$ for $b\ge m^2$. Let $\ell$ be the vector of $m$…
Replicability requires that algorithmic conclusions remain consistent when rerun on independently drawn data. A central structural question is composition: given $k$ problems each admitting a $\rho$-replicable algorithm with sample…
We develop several efficient algorithms for the classical \emph{Matrix Scaling} problem, which is used in many diverse areas, from preconditioning linear systems to approximation of the permanent. On an input $n\times n$ matrix $A$, this…
Taking partial traces for computing reduced density matrices, or related functions, is a ubiquitous procedure in the quantum mechanics of composite systems. In this article, we present a thorough description of this function and analyze the…
Universal compression of patterns of sequences generated by independently identically distributed (i.i.d.) sources with unknown, possibly large, alphabets is investigated. A pattern is a sequence of indices that contains all consecutive…
The problem of reconstructing evolutionary trees or phylogenies is of great interest in computational biology. A popular model for this problem assumes that we are given the set of leaves (current species) of an unknown binary tree and the…