Related papers: Various improvements to text fingerprinting
We aim to study the set of color sets of continuous regions of an image given as a matrix of $m$ rows over $n\geq m$ columns where each element in the matrix is an integer from $[1,\sigma]$ named a {\em color}. The set of distinct colors in…
The palindromic fingerprint of a string $S[1\ldots n]$ is the set $PF(S) = \{(i,j)~|~ S[i\ldots j] \textit{ is a maximal }\\ \textit{palindrome substring of } S\}$. In this work, we consider the problem of string reconstruction from a…
The Karp-Rabin fingerprint of a string is a type of hash value that due to its strong properties has been used in many string algorithms. In this paper we show how to construct a data structure for a string $S$ of size $N$ compressed by a…
Algorithms for listing the subgraphs satisfying a given property (e.g.,being a clique, a cut, a cycle, etc.) fall within the general framework of set systems. A set system (U, F) uses a ground set U (e.g., the network nodes) and an…
The abelian pattern matching problem consists in finding all substrings of a text which are permutations of a given pattern. This problem finds application in many areas and can be solved in linear time by a naive sliding window approach.…
Fingerprinting enables two parties to infer whether the messages they hold are the same or different when the cost of communication is high: each message is associated with a smaller fingerprint and comparisons between messages are made in…
Fingerprints are the most widely deployed form of biometric identification. No two individuals share the same fingerprint because they have unique biometric identifiers. This paper presents an efficient fingerprint verification algorithm…
The Shortest Common Superstring problem (SCS) consists, for a set of strings S = {s_1,...,s_n}, in finding a minimum length string that contains all s_i, 1<= i <= n, as substrings. While a 2+11/30 approximation ratio algorithm has recently…
The problem of finding a center string that is `close' to every given string arises and has many applications in computational biology and coding theory. This problem has two versions: the Closest String problem and the Closest Substring…
We propose a method to exponentially speed up computation of various fingerprints, such as the ones used to compute similarity and rarity in massive data sets. Rather then maintaining the full stream of $b$ items of a universe $[u]$, such…
Here we study the complexity of string problems as a function of the size of a program that generates input. We consider straight-line programs (SLP), since all algorithms on SLP-generated strings could be applied to processing…
This study develops an algorithm to solve a variation of the Shortest Common Superstring (SCS) problem. There are two modifications to the base SCS problem. First, one string in the set S is allowed to have up to K mistakes, defined as not…
The Shortest Superstring Problem (SSP) consists, for a set of strings S = {s_1,...,s_n}, to find a minimum length string that contains all s_i, 1 <= i <= k, as substrings. This problem is proved to be NP-Complete and APX-hard. Guaranteed…
Given strings $P$ and $Q$ the (exact) string matching problem is to find all positions of substrings in $Q$ matching $P$. The classical Knuth-Morris-Pratt algorithm [SIAM J. Comput., 1977] solves the string matching problem in linear time…
Molecular fingerprints, i.e. feature vectors describing atomistic neighborhood configurations, is an important abstraction and a key ingredient for data-driven modeling of potential energy surface and interatomic force. In this paper, we…
In the maximum coverage problem we are given $d$ subsets from a universe $[n]$, and the goal is to output $k$ subsets such that their union covers the largest possible number of distinct items. We present the first algorithm for maximum…
In the classic longest common substring (LCS) problem, we are given two strings $S$ and $T$, each of length at most $n$, over an alphabet of size $\sigma$, and we are asked to find a longest string occurring as a fragment of both $S$ and…
The problem of finding longest common subsequence (LCS) is one of the fundamental problems in computer science, which finds application in fields such as computational biology, text processing, information retrieval, data compression etc.…
Finding the longest common subsequence in $k$-length substrings (LCS$k$) is a recently proposed problem motivated by computational biology. This is a generalization of the well-known LCS problem in which matching symbols from two sequences…
Given an alphabet $S$, we consider the size of the subsets of the full sequence space $S^{\rm {\bf Z}}$ determined by the additional restriction that $x_i\not=x_{i+f(n)},\ i\in {\rm {\bf Z}},\ n\in {\rm {\bf N}}.$ Here $f$ is a positive,…