Related papers: Predecessor search with distance-sensitive query t…
Searching for all occurrences of a pattern in a text is a fundamental problem in computer science with applications in many other fields, like natural language processing, information retrieval and computational biology. In the last two…
Backtracking line search is foundational in numerical optimization. The basic idea is to adjust the step-size of an algorithm by a constant factor until some chosen criterion (e.g. Armijo, Descent Lemma) is satisfied. We propose a novel way…
For k>=1, we consider the graph dynamical system known as a k-reversible process. In such process, each vertex in the graph has one of two possible states at each discrete time. Each vertex changes its state between the present time and the…
The working-set bound [Sleator and Tarjan, J. ACM, 1985] roughly states that searching for an element is fast if the element was accessed recently. Binary search trees, such as splay trees, can achieve this property in the amortized sense,…
An absent word of a word y of length n is a word that does not occur in y. It is a minimal absent word if all its proper factors occur in y. Minimal absent words have been computed in genomes of organisms from all domains of life; their…
Sorting a set of items is a task that can be useful by itself or as a building block for more complex operations. The more sophisticated and fast sorting algorithms become asymptotically, the less efficient they are for small sets of items…
Given a set of n disjoint balls b1, . . ., bn in IRd, we provide a data structure, of near linear size, that can answer (1 \pm \epsilon)-approximate kth-nearest neighbor queries in O(log n + 1/\epsilon^d) time, where k and \epsilon are…
A Random Access query to a string $T\in [0..\sigma)^n$ asks for the character $T[i]$ at a given position $i\in [0..n)$. In $O(n\log\sigma)$ bits of space, this fundamental task admits constant-time queries. While this is optimal in the…
We study sequential search without priors. Our interest lies in decision rules that are close to being optimal under each prior and after each history. We call these rules dynamically robust. The search literature employs optimal rules…
Given a string of length $n$ that is composed of $r$ runs of letters from the alphabet $\{0,1,\ldots,\sigma{-}1\}$ such that $2 \le \sigma \le r$, we describe a data structure that, provided $r \le n / \log^{\omega(1)} n$, stores the string…
Given a string $T$ of length $n$ over an alphabet $\Sigma\subset \{1,2,\ldots,n^{O(1)}\}$ of size $\sigma$, we are to preprocess $T$ so that given a range $[i,j]$, we can return a representation of a shortest string over $\Sigma$ that is…
We report (to our knowledge) the first evaluation of Constraint Satisfaction as a computational framework for solving closest string problems. We show that careful consideration of symbol occurrences can provide search heuristics that…
Sequence comparison is a prerequisite to virtually all comparative genomic analyses. It is often realized by sequence alignment techniques, which are computationally expensive. This has led to increased research into alignment-free…
The minimizers sampling mechanism is a popular mechanism for string sampling introduced independently by Schleimer et al. [SIGMOD 2003] and by Roberts et al. [Bioinf. 2004]. Given two positive integers $w$ and $k$, it selects the…
Users issue queries to Search Engines, and try to find the desired information in the results produced. They repeat this process if their information need is not met at the first place. It is crucial to identify the important words in a…
We consider the problem of sorting $n$ items, given the outcomes of $m$ pre-existing comparisons. We present a simple and natural deterministic algorithm that runs in $O(m + \log T)$ time and does $O(\log T)$ comparisons, where $T$ is the…
We consider the predecessor problem on the ultra-wide word RAM model of computation, which extends the word RAM model with 'ultrawords' consisting of $w^2$ bits [TAMC, 2015]. The model supports arithmetic and boolean operations on…
In many applications, it is necessary to determine the string similarity. Edit distance[WF74] approach is a classic method to determine Field Similarity. A well known dynamic programming algorithm [GUS97] is used to calculate edit distance…
Full-text search engines are important tools for information retrieval. In a proximity full-text search, a document is relevant if it contains query terms near each other, especially if the query terms are frequently occurring words. For…
Nearest neighbor search is a fundamental data structure problem with many applications in machine learning, computer vision, recommendation systems and other fields. Although the main objective of the data structure is to quickly report…