Related papers: Simple Linear-time Repetition Factorization
Let n be any odd natural number other than a perfect square, in this article it is demonstrated that this new factorization algorithm is much more efficient than the implementation technique [2,3 p.1470], described in this article, of the…
We show that the known list-decoding algorithms for univariate multiplicity and folded Reed-Solomon codes can be made to run in $\tilde{O}(n)$ time. Univariate multiplicity codes and FRS codes are natural variants of Reed-Solomon codes that…
In the Bin Packing problem one is given $n$ items with weights $w_1,\ldots,w_n$ and $m$ bins with capacities $c_1,\ldots,c_m$. The goal is to find a partition of the items into sets $S_1,\ldots,S_m$ such that $w(S_j) \leq c_j$ for every bin…
In binary polynomial optimization, the goal is to find a binary point maximizing a given polynomial function. In this paper, we propose a novel way of formulating this general optimization problem, which we call factorized binary polynomial…
We revisit the problem of finding shortest unique substring (SUS) proposed recently by [6]. We propose an optimal $O(n)$ time and space algorithm that can find an SUS for every location of a string of size $n$. Our algorithm significantly…
Re-Pair is a grammar compression scheme with favorably good compression rates. The computation of Re-Pair comes with the cost of maintaining large frequency tables, which makes it hard to compute Re-Pair on large scale data sets. As a…
Recently, Cenzato et al.\ proposed a new text index, called the \emph{suffixient array}, which is a subset of the suffix array and supports locating a single pattern occurrence or finding its maximal exact matches (MEMs), assuming random…
Classically, the edit distance of two length-$n$ strings can be computed in $O(n^2)$ time, whereas an $O(n^{2-\epsilon})$-time procedure would falsify the Orthogonal Vectors Hypothesis. If the edit distance does not exceed $k$, the running…
Newton iteration (NI) is an almost 350 years old recursive formula that approximates a simple root of a polynomial quite rapidly. We generalize it to a matrix recurrence (allRootsNI) that approximates all the roots simultaneously. In this…
We present a fast direct algorithm for computing symmetric factorizations, i.e. $A = WW^T$, of symmetric positive-definite hierarchical matrices with weak-admissibility conditions. The computational cost for the symmetric factorization…
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…
Burrows-Wheeler transform (BWT) is an invertible text transformation that, given a text $T$ of length $n$, permutes its symbols according to the lexicographic order of suffixes of $T$. BWT is one of the most heavily studied algorithms in…
A new method for constructing minimum-redundancy binary prefix codes is described. Our method does not explicitly build a Huffman tree; instead it uses a property of optimal prefix codes to compute the codeword lengths corresponding to the…
We study the classical approximate string matching problem, that is, given strings $P$ and $Q$ and an error threshold $k$, find all ending positions of substrings of $Q$ whose edit distance to $P$ is at most $k$. Let $P$ and $Q$ have…
We present the first worst-case linear time algorithm that directly computes the parameterized suffix and LCP arrays for constant sized alphabets. Previous algorithms either required quadratic time or the parameterized suffix tree to be…
In the non-negative matrix factorization (NMF) problem, the input is an $m\times n$ matrix $M$ with non-negative entries and the goal is to factorize it as $M\approx AW$. The $m\times k$ matrix $A$ and the $k\times n$ matrix $W$ are both…
We study the IS-algorithm, a well-known linear-time algorithm for computing the suffix array of a word. This algorithm relies on transforming the input word $w$ into another word, called the reduced word of $w$, that will be at least twice…
We consider string matching with variable length gaps. Given a string $T$ and a pattern $P$ consisting of strings separated by variable length gaps (arbitrary strings of length in a specified range), the problem is to find all ending…
Document listing on string collections is the task of finding all documents where a pattern appears. It is regarded as the most fundamental document retrieval problem, and is useful in various applications. Many of the fastest-growing…
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…