Related papers: Linear-Space Substring Range Counting over Polylog…
The well-known Eulerian path problem can be solved in polynomial time (more exactly, there exists a linear time algorithm for this problem). In this paper, we model the problem using a string matching framework, and then initiate an…
A distance labeling scheme labels the $n$ nodes of a graph with binary strings such that, given the labels of any two nodes, one can determine the distance in the graph between the two nodes by looking only at the labels. A $D$-preserving…
We present the first in-place algorithm for sorting an array of size n that performs, in the worst case, at most O(n log n) element comparisons and O(n) element transports. This solves a long-standing open problem, stated explicitly, e.g.,…
Graph labeling problems have been widely studied in the last decades and have a vast area of application. In this work, we study the recently introduced S-labeling problem, in which the nodes get labeled using labels from 1 to |V | and for…
Covers being one of the most popular form of regularities in strings, have drawn much attention over time. In this paper, we focus on the problem of linear time inference of strings from cover arrays using the least sized alphabet possible.…
In the problem of semialgebraic range searching, we are to preprocess a set of points in $\mathbb{R}^D$ such that the subset of points inside a semialgebraic region described by $O(1)$ polynomial inequalities of degree $\Delta$ can be found…
Suffix tree (and the closely related suffix array) are fundamental structures capturing all substrings of a given text essentially by storing all its suffixes in the lexicographical order. In some applications, we work with a subset of $b$…
An arc-annotated string is a string of characters, called bases, augmented with a set of pairs, called arcs, each connecting two bases. Given arc-annotated strings $P$ and $Q$ the arc-preserving subsequence problem is to determine if $P$…
Given a pattern $p = s_1x_1s_2x_2\cdots s_{r-1}x_{r-1}s_r$ such that $x_1,x_2,\ldots,x_{r-1}\in\{x,\overset{{}_{\leftarrow}}{x}\}$, where $x$ is a variable and $\overset{{}_{\leftarrow}}{x}$ its reversal, and $s_1,s_2,\ldots,s_r$ are…
Let S be a finite, ordered alphabet, and let x = x_1 x_2 ... x_n be a string over S. A "secondary index" for x answers alphabet range queries of the form: Given a range [a_l,a_r] over S, return the set I_{[a_l;a_r]} = {i |x_i \in [a_l;…
We revisit the range sampling problem: the input is a set of points where each point is associated with a real-valued weight. The goal is to store them in a structure such that given a query range and an integer $k$, we can extract $k$…
The area of sublinear algorithms have recently received a lot of attention. In this setting, one has to choose specific access model for the input, as the algorithm does not have time to pre-process or even to see the whole input. A…
We show that if DTIME[2^{O(n)}] is not included in DSPACE[2^{o(n)}], then, for every set B in PSPACE, all strings x in B of length n can be represented by a string compressed(x) of length at most log (|B^{=n}|) + O(log n), such that a…
We study an abstract optimization problem arising from biomolecular sequence analysis. For a sequence A of pairs (a_i,w_i) for i = 1,..,n and w_i>0, a segment A(i,j) is a consecutive subsequence of A starting with index i and ending with…
The problem called "String reconstruction from substrings" is a mathematical model of sequencing by hybridization that plays an important role in DNA sequencing. In this problem, we are given a blackbox oracle holding an unknown string…
Many parallel algorithms which solve basic problems in computer science use auxiliary space linear in the input to facilitate conflict-free computation. There has been significant work on improving these parallel algorithms to be in-place,…
In the first part of this paper we develop some theorems in linear algebra applicable to information theory when all random variables involved are linear functions of the individual bits of a source of independent bits. We say that a…
We give a proof of the conjecture of Nelson and Nguyen [FOCS 2013] on the optimal dimension and sparsity of oblivious subspace embeddings, up to sub-polylogarithmic factors: For any $n\geq d$ and $\epsilon\geq d^{-O(1)}$, there is a random…
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)…
Many modern multiclass and multilabel problems are characterized by increasingly large output spaces. For these problems, label embeddings have been shown to be a useful primitive that can improve computational and statistical efficiency.…