Related papers: Dynamic Suffix Array with Sub-linear update time a…

We consider a range of simply stated dynamic data structure problems on strings. An update changes one symbol in the input and a query asks us to compute some function of the pattern of length $m$ and a substring of a longer text. We give…

We revisit the classic border tree data structure [Gu, Farach, Beigel, SODA 1994] that answers the following prefix-suffix queries on a string $T$ of length $n$ over an integer alphabet $\Sigma=[0,\sigma)$: for any $i,j \in [0,n)$ return…

Deterministic finite automata are one of the simplest and most practical models of computation studied in automata theory. Their conceptual extension is the non-deterministic finite automata which also have plenty of applications. In this…

We consider the problem of maintaining a $(1-\epsilon)$-approximation to the densest subgraph (DSG) in an undirected multigraph as it undergoes edge insertions and deletions (the fully dynamic setting). Sawlani and Wang [SW20] developed a…

We study geometric set cover problems in dynamic settings, allowing insertions and deletions of points and objects. We present the first dynamic data structure that can maintain an $O(1)$-approximation in sublinear update time for set cover…

Suffix trees are a fundamental data structure in stringology, but their space usage, though linear, is an important problem for its applications. We design and implement a new compressed suffix tree targeted to highly repetitive texts, such…

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…

The problem of dictionary matching is a classical problem in string matching: given a set S of d strings of total length n characters over an (not necessarily constant) alphabet of size sigma, build a data structure so that we can match in…

We present a fully dynamic data structure for the maintenance of lower envelopes of pseudo-lines. The structure has $O(\log^2 n)$ update time and $O(\log n)$ vertical ray shooting query time. To achieve this performance, we devise a new…

Suffix trees are one of the most versatile data structures in stringology, with many applications in bioinformatics. Their main drawback is their size, which can be tens of times larger than the input sequence. Much effort has been put into…

The binary indexed tree, or Fenwick tree, is a data structure that can efficiently update values and calculate prefix sums in an array. It allows both of these operations to be performed in $O(\log_2 N)$ time. Here we present a novel data…

We propose a new linear-size data structure which provides a fast access to all palindromic substrings of a string or a set of strings. This structure inherits some ideas from the construction of both the suffix trie and suffix tree. Using…

Given a set of $k$ strings $I$, their longest common subsequence (LCS) is the string with the maximum length that is a subset of all the strings in $I$. A data-structure for this problem preprocesses $I$ into a data-structure such that the…

Given a text $T$ of length $n$, we propose a deterministic online algorithm computing the sparse suffix array and the sparse longest common prefix array of $T$ in $O(c \sqrt{\lg n} + m \lg m \lg n \lg^* n)$ time with $O(m)$ words of space…

The suffix array, perhaps the most important data structure in modern string processing, is often augmented with the longest common prefix (LCP) array which stores the lengths of the LCPs for lexicographically adjacent suffixes of a string.…

Real-world networks are prone to breakdowns. Typically in the underlying graph $G$, besides the insertion or deletion of edges, the set of active vertices changes overtime. A vertex might work actively, or it might fail, and gets isolated…

The suffix trees are fundamental data structures for various kinds of string processing. The suffix tree of a string $T$ of length $n$ has $O(n)$ nodes and edges, and the string label of each edge is encoded by a pair of positions in $T$.…

Repeat finding in strings has important applications in subfields such as computational biology. Surprisingly, all prior work on repeat finding did not consider the constraint on the locality of repeats. In this paper, we propose and study…

We present a randomized algorithm for dynamic graph connectivity. With failure probability less than $1/n^c$ (for any constant $c$ we choose), our solution has worst case running time $O(\log^3 n)$ per edge insertion, $O(\log^4 n)$ per edge…

We present a simple algorithm for computing the document array given a string collection and its suffix array as input. Our algorithm runs in linear time using constant additional space for strings from constant alphabets.