Related papers: Polynomial-time trace reconstruction in the low de…
Accurate determination of particle track reconstruction parameters will be a major challenge for the High Luminosity Large Hadron Collider (HL-LHC) experiments. The expected increase in the number of simultaneous collisions at the HL-LHC…
We study optimization problems that are neither approximable in polynomial time (at least with a constant factor) nor fixed parameter tractable, under widely believed complexity assumptions. Specifically, we focus on Maximum Independent…
Graphs are a powerful tool for analyzing large data sets, but many real-world phenomena involve interactions that go beyond the simple pairwise relationships captured by a graph. In this paper we introduce and study a simple combinatorial…
In models to generate program source code from natural language, representing this code in a tree structure has been a common approach. However, existing methods often fail to generate complex code correctly due to a lack of ability to…
We present a near-linear time algorithm that approximates the edit distance between two strings within a polylogarithmic factor; specifically, for strings of length n and every fixed epsilon>0, it can compute a (log n)^O(1/epsilon)…
Recently we presented the first algorithm for maintaining the set of nodes reachable from a source node in a directed graph that is modified by edge deletions with $o(mn)$ total update time, where $m$ is the number of edges and $n$ is the…
In the planted partition problem, the $n$ vertices of a random graph are partitioned into $k$ "clusters," and edges between vertices in the same cluster and different clusters are included with constant probability $p$ and $q$, respectively…
We revisit the complexity of approximate pattern matching in an elastic-degenerate string. Such a string is a sequence of $n$ finite sets of strings of total length $N$, and compactly describes a collection of strings obtained by first…
We develop fast spectral algorithms for tensor decomposition that match the robustness guarantees of the best known polynomial-time algorithms for this problem based on the sum-of-squares (SOS) semidefinite programming hierarchy. Our…
Reconstruction codes are generalizations of error-correcting codes that can correct errors by a given number of noisy reads. The study of such codes was initiated by Levenshtein in 2001 and developed recently due to applications in modern…
In the problem of compressive phase retrieval, one wants to recover an approximately $k$-sparse signal $x \in \mathbb{C}^n$, given the magnitudes of the entries of $\Phi x$, where $\Phi \in \mathbb{C}^{m \times n}$. This problem has…
We introduce the Random Subsequence Model, a spin glass model on pairs of random strings $(X,Y) \in \{0,1\}^N \times \{0,1\}^M$ whose partition function counts subsequence embeddings of $Y$ into $X$. We study two variants: the null model,…
Motivated by the problem of enumerating all tree decompositions of a graph, we consider in this article the problem of listing all the minimal chordal completions of a graph. In \cite{carmeli2020} (\textsc{Pods 2017}) Carmeli \emph{et al.}…
As DNA data storage moves closer to practical deployment, minimizing sequencing coverage depth is essential to reduce both operational costs and retrieval latency. This paper addresses the recently studied Random Access Problem, which…
In the Maximum Duo-Preservation String Mapping problem we are given two strings and wish to map the letters of the former to the letters of the latter so as to maximise the number of duos. A duo is a pair of consecutive letters that is…
The restoration lemma by Afek, Bremler-Barr, Kaplan, Cohen, and Merritt [Dist. Comp. '02] proves that, in an undirected unweighted graph, any replacement shortest path avoiding a failing edge can be expressed as the concatenation of two…
Building particle tracks is the most computationally intense step of event reconstruction at the LHC. With the increased instantaneous luminosity and associated increase in pileup expected from the High-Luminosity LHC, the computational…
We describe a method that will reconstruct an unrooted binary phylogenetic level-1 network on n taxa from the set of all quartets containing a certain fixed taxon, in O(n^3) time. We also present a more general method which can handle more…
We study the problem of retrieving data from a channel that breaks the input sequence into a set of unordered fragments of random lengths, which we refer to as the chop-and-shuffle channel. The length of each fragment follows a geometric…
The Path Contraction and Cycle Contraction problems take as input an undirected graph $G$ with $n$ vertices, $m$ edges and an integer $k$ and determine whether one can obtain a path or a cycle, respectively, by performing at most $k$ edge…