Related papers: Range Non-Overlapping Indexing
In this paper we revisit the classical regular expression matching problem, namely, given a regular expression $R$ and a string $Q$, decide if $Q$ matches one of the strings specified by $R$. Let $m$ and $n$ be the length of $R$ and $Q$,…
We present a sorting algorithm for the case of recurrent random comparison errors. The algorithm essentially achieves simultaneously good properties of previous algorithms for sorting $n$ distinct elements in this model. In particular, it…
We revisit Hopcroft's problem and related fundamental problems about geometric range searching. Given $n$ points and $n$ lines in the plane, we show how to count the number of point-line incidence pairs or the number of point-above-line…
The classic exact pattern matching problem, given two strings -- a pattern $P$ of length $m$ and a text $T$ of length $n$ -- asks whether $P$ occurs as a substring of $T$. A property tester for the problem needs to distinguish (with high…
Let $T [1..n]$ be a text over an alphabet of size $\sigma \in \mathrm{polylog} (n)$, let $r^*$ be the sum of the numbers of runs in the Burrows-Wheeler Transforms of $T$ and its reverse, and let $z$ be the number of phrases in the LZ77…
Longest common extension queries (LCE queries) and runs are ubiquitous in algorithmic stringology. Linear-time algorithms computing runs and preprocessing for constant-time LCE queries have been known for over a decade. However, these…
The equidistant subsequence pattern matching problem is considered. Given a pattern string $P$ and a text string $T$, we say that $P$ is an \emph{equidistant subsequence} of $T$ if $P$ is a subsequence of the text such that consecutive…
Define the non-overlapping return time of a random process to be the number of blocks that we wait before a particular block reappears. We prove a Central Limit Theorem based on these return times. This result has applications to entropy…
Given a string $S$, the \emph{compressed indexing problem} is to preprocess $S$ into a compressed representation that supports fast \emph{substring queries}. The goal is to use little space relative to the compressed size of $S$ while…
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…
In the orthogonal range reporting problem, we are to preprocess a set of $n$ points with integer coordinates on a $U \times U$ grid. The goal is to support reporting all $k$ points inside an axis-aligned query rectangle. This is one of the…
We investigate a weighted variant of the interval stabbing problem, where the goal is to design an efficient data structure for a given set $\mathcal{I}$ of weighted intervals such that, for a query point $q$ and an integer $k>0$, we can…
Let $\D = $$ \{d_1,d_2,...d_D\}$ be a given set of $D$ string documents of total length $n$, our task is to index $\D$, such that the $k$ most relevant documents for an online query pattern $P$ of length $p$ can be retrieved efficiently. We…
Indexing intervals is a fundamental problem, finding a wide range of applications. Recent work on managing large collections of intervals in main memory focused on overlap joins and temporal aggregation problems. In this paper, we propose…
Approximate string matching is the problem of finding all factors of a text t of length n that are at a distance at most k from a pattern x of length m. Approximate circular string matching is the problem of finding all factors of t that…
We study the approximate range searching for three variants of the clustering problem with a set $P$ of $n$ points in $d$-dimensional Euclidean space and axis-parallel rectangular range queries: the $k$-median, $k$-means, and $k$-center…
Let $k \geq 2$ be a constant. Given any $k$ convex polygons in the plane with a total of $n$ vertices, we present an $O(n\log^{2k-3}n)$ time algorithm that finds a translation of each of the polygons such that the area of intersection of…
Two strings are considered to have parameterized matching when there exists a bijection of the parameterized alphabet onto itself such that it transforms one string to another. Parameterized matching has application in software duplication…
Several biological problems require the identification of regions in a sequence where some feature occurs within a target density range: examples including the location of GC-rich regions, identification of CpG islands, and sequence…
Quantifying extra functions, herein referred to as outcome functions, over optimal solutions of an optimization problem can provide decision makers with additional information on a system. This bears more importance when the optimization…