Related papers: Sublinear Algorithms for Gap Edit Distance
Unbalanced translocations are among the most frequent chromosomal alterations, accounted for 30\% of all losses of heterozygosity, a major genetic event causing inactivation of tumor suppressor genes. Despite of their central role in…
We consider an \emph{approximate} version of the trace reconstruction problem, where the goal is to recover an unknown string $s\in\{0,1\}^n$ from $m$ traces (each trace is generated independently by passing $s$ through a probabilistic…
Given a pattern string $P$ of length $n$ and a query string $T$ of length $m$, where the characters of $P$ and $T$ are drawn from an alphabet of size $\Delta$, the {\em exact string matching} problem consists of finding all occurrences of…
For a graph $G$, let $Z(G,\lambda)$ be the partition function of the monomer-dimer system defined by $\sum_k m_k(G)\lambda^k$, where $m_k(G)$ is the number of matchings of size $k$ in $G$. We consider graphs of bounded degree and develop a…
We propose the neural string edit distance model for string-pair matching and string transduction based on learnable string edit distance. We modify the original expectation-maximization learned edit distance algorithm into a differentiable…
Most of the literature on spanners focuses on building the graph from scratch. This paper instead focuses on adding edges to improve an existing graph. A major open problem in this field is: given a graph embedded in a metric space, and a…
We consider the problem of encoding a string of length $n$ from an integer alphabet of size $\sigma$ so that access and substring equality queries (that is, determining the equality of any two substrings) can be answered efficiently. Any…
We give a nearly optimal sublinear-time algorithm for approximating the size of a minimum vertex cover in a graph G. The algorithm may query the degree deg(v) of any vertex v of its choice, and for each 1 <= i <= deg(v), it may ask for the…
Consider the following "local" cut-detection problem in a directed graph: We are given a seed vertex $x$ and need to remove at most $k$ edges so that at most $\nu$ edges can be reached from $x$ (a "local" cut) or output $\bot$ to indicate…
We consider the problem of approximating the girth, $g$, of an unweighted and undirected graph $G=(V,E)$ with $n$ nodes and $m$ edges. A seminal result of Itai and Rodeh [SICOMP'78] gave an additive $1$-approximation in $O(n^2)$ time, and…
Subgraph similarity search, one of the core problems in graph search, concerns whether a target graph approximately contains a query graph. The problem is recently touched by neural methods. However, current neural methods do not consider…
A well-known problem in data science and machine learning is {\em linear regression}, which is recently extended to dynamic graphs. Existing exact algorithms for updating the solution of dynamic graph regression require at least a linear…
Similar subtrajectory search is a finer-grained operator that can better capture the similarities between one query trajectory and a portion of a data trajectory than the traditional similar trajectory search, which requires the two checked…
In well-studied graph modification problems, adding and deleting vertices and edges are used as graph editing operations. We propose a model for graph modification on geometric intersection graphs called Geometric Graph Edit Distance that…
The Longest Common Subsequence (LCS) is a fundamental string similarity measure, and computing the LCS of two strings is a classic algorithms question. A textbook dynamic programming algorithm gives an exact algorithm in quadratic time, and…
Finding the length of the longest increasing subsequence (LIS) is a classic algorithmic problem. Let $n$ denote the size of the array. Simple $O(n\log n)$ algorithms are known for this problem. We develop a polylogarithmic time randomized…
We develop catalytic algorithms for fundamental problems in algorithm design that run in polynomial time, use only $\mathcal{O}(\log(n))$ workspace, and use sublinear catalytic space matching the best-known space bounds of non-catalytic…
We introduce a novel definition of approximate palindromes in strings, and provide an algorithm to find all maximal approximate palindromes in a string with up to $k$ errors. Our definition is based on the usual edit operations of…
On sparse graphs, Roditty and Williams [2013] proved that no $O(n^{2-\varepsilon})$-time algorithm achieves an approximation factor smaller than $\frac{3}{2}$ for the diameter problem unless SETH fails. In this article, we solve an open…
Additive spanners are fundamental graph structures with wide applications in network design, graph sparsification, and distance approximation. In particular, a $4$-additive spanner is a subgraph that preserves all pairwise distances up to…