Related papers: Detecting regularities on grammar-compressed strin…
In this paper, we consider the problems for covering multiple intervals on a line. Given a set $B$ of $m$ line segments (called "barriers") on a horizontal line $L$ and another set $S$ of $n$ horizontal line segments of the same length in…
The problem of detecting and removing redundant constraints is fundamental in optimization. We focus on the case of linear programs (LPs), given by $d$ variables with $n$ inequality constraints. A constraint is called \emph{redundant}, if…
In this paper we present a new algorithm for solving linear programs that requires only $\tilde{O}(\sqrt{rank(A)}L)$ iterations to solve a linear program with $m$ constraints, $n$ variables, and constraint matrix $A$, and bit complexity…
In this work, we obtain the following new results. 1. Given a sequence $D=((h_1,s_1), (h_2,s_2) ..., (h_n,s_n))$ of number pairs, where $s_i>0$ for all $i$, and a number $L_h$, we propose an O(n)-time algorithm for finding an index interval…
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…
A seed in a word is a relaxed version of a period in which the occurrences of the repeating subword may overlap. We show a linear-time algorithm computing a linear-size representation of all the seeds of a word (the number of seeds might be…
The Longest Common Subsequence (LCS) of two strings is a fundamental string similarity measure with a classical dynamic programming solution taking quadratic time. Despite significant efforts, little progress was made in improving the…
The Lempel-Ziv parsing of a string (LZ77 for short) is one of the most important and widely-used algorithmic tools in data compression and string processing. We show that the Lempel-Ziv parsing of a string of length $n$ on an alphabet of…
This paper extends the problem of 2-dimensional palindrome search into the area of approximate matching. Using the Hamming distance as the measure, we search for 2D palindromes that allow up to $k$ mismatches. We consider two different…
Given a string $S$ of length $N$ on a fixed alphabet of $\sigma$ symbols, a grammar compressor produces a context-free grammar $G$ of size $n$ that generates $S$ and only $S$. In this paper we describe data structures to support the…
In this paper, we consider a generalized longest common subsequence problem with multiple substring exclusion constrains. For the two input sequences $X$ and $Y$ of lengths $n$ and $m$, and a set of $d$ constrains $P=\{P_1,...,P_d\}$ of…
Finding an Approximate Longest Common Substring (ALCS) within a given set $S=\{s_1,s_2,\ldots,s_m\}$ of $m \ge 2$ strings is a key problem in computational biology, such as identifying related mutations across multiple genetic sequences. We…
In this paper we present two algorithms for the following problem: given a string and a rational $e > 1$, detect in the online fashion the earliest occurrence of a repetition of exponent $\ge e$ in the string. 1. The first algorithm…
In Gapped String Indexing, the goal is to compactly represent a string $S$ of length $n$ such that for any query consisting of two strings $P_1$ and $P_2$, called patterns, and an integer interval $[\alpha, \beta]$, called gap range, we can…
This paper studies the problem of enumerating all maximal collinear subsets of size at least three in a given set of $n$ points. An algorithm for this problem, besides solving degeneracy testing and the exact fitting problem, can also help…
A fundamental problem in shape matching and geometric similarity is computing the maximum area overlap between two polygons under translation. For general simple polygons, the best-known algorithm runs in $O((nm)^2 \log(nm))$ time [Mount,…
We propose a new approach for calculating the Lempel-Ziv factorization of a string, based on run length encoding (RLE). We present a conceptually simple off-line algorithm based on a variant of suffix arrays, as well as an on-line algorithm…
In this paper we study the fundamental problem of maintaining a dynamic collection of strings under the following operations: concat - concatenates two strings, split - splits a string into two at a given position, compare - finds the…
In this paper, we design new sublinear-time algorithms for solving the gap edit distance problem and for embedding edit distance to Hamming distance. For the gap edit distance problem, we give an $\tilde{O}(\frac{n}{k}+k^2)$-time greedy…
In this paper, we extend the notion of gapped strings to elastic-degenerate strings. An elastic-degenerate string can been seen as an ordered collection of k > 1 seeds (substrings/subpatterns) interleaved by elastic-degenerate symbols such…