Related papers: Merging Sorted Lists of Similar Strings
Overlapping clusters are common in models of many practical data-segmentation applications. Suppose we are given $n$ elements to be clustered into $k$ possibly overlapping clusters, and an oracle that can interactively answer queries of the…
A novel integer sorting technique was proposed replacing bucket sort, distribution counting sort and address calculation sort family of algorithms which requires only constant amount of additional memory. The technique was inspired from one…
Mixed packing and covering problems are problems that can be formulated as linear programs using only non-negative coefficients. Examples include multicommodity network flow, the Held-Karp lower bound on TSP, fractional relaxations of set…
The problem called "String reconstruction from substrings" is a mathematical model of sequencing by hybridization that plays an important role in DNA sequencing. In this problem, we are given a blackbox oracle holding an unknown string…
We study the problem of computing a longest increasing subsequence in a sequence $S$ of $n$ distinct elements in the presence of persistent comparison errors. In this model, every comparison between two elements can return the wrong result…
In this paper, we explore worst-case solutions for the problems of single and multiple matching on strings in the word RAM model with word length w. In the first problem, we have to build a data structure based on a pattern p of length m…
Sorting has a natural generalization where the input consists of: (1) a ground set $X$ of size $n$, (2) a partial oracle $O_P$ specifying some fixed partial order $P$ on $X$ and (3) a linear oracle $O_L$ specifying a linear order $L$ that…
A key principle in string processing is local consistency: using short contexts to handle matching fragments of a string consistently. String synchronizing sets [Kempa, Kociumaka; STOC 2019] are an influential instantiation of this…
We discuss how string sorting algorithms can be parallelized on modern multi-core shared memory machines. As a synthesis of the best sequential string sorting algorithms and successful parallel sorting algorithms for atomic objects, we…
In computer science, sorting algorithms are crucial for data processing and machine learning. Large datasets and high efficiency requirements provide challenges for comparison-based algorithms like Quicksort and Merge sort, which achieve…
When eating spaghetti, one should have the sauce and noodles mixed instead of eating them separately. We argue that also in string solving, word equations and regular constraints are better mixed together than approached separately as in…
The \emph{generalized sorting problem} is a restricted version of standard comparison sorting where we wish to sort $n$ elements but only a subset of pairs are allowed to be compared. Formally, there is some known graph $G = (V, E)$ on the…
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…
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 consider the problem of computing the Maximal Exact Matches (MEMs) of a given pattern $P[1 .. m]$ on a large repetitive text collection $T[1 .. n]$, which is represented as a (hopefully much smaller) run-length context-free grammar of…
Given a pattern x of length m and a text y of length n, both over an ordered alphabet, the order-preserving pattern matching problem consists in finding all substrings of the text with the same relative order as the pattern. It is an…
The problem of approximate string matching is important in many different areas such as computational biology, text processing and pattern recognition. A great effort has been made to design efficient algorithms addressing several variants…
We present a compressed representation of tries based on top tree compression [ICALP 2013] that works on a standard, comparison-based, pointer machine model of computation and supports efficient prefix search queries. Namely, we show how to…
The classic string indexing problem is to preprocess a string $S$ into a compact data structure that supports efficient subsequent pattern matching queries, that is, given a pattern string $P$, report all occurrences of $P$ within $S$. In…
We consider approximating data structures with collections of the items that they contain. For examples, lists, binary trees, tuples, etc, can be approximated by sets or multisets of the items within them. Such approximations can be used to…