Related papers: Wheeler maps
We tackle the problem of attributed graph transformations and propose a new algorithmic approach for defining parallel graph transformations allowing overlaps. We start by introducing some abstract operations over graph structures. Then, we…
Given a pattern $P$ and a text $T$, both strings over a binary alphabet, the binary jumbled string matching problem consists in telling whether any permutation of $P$ occurs in $T$. The indexed version of this problem, i.e., preprocessing a…
The Lempel-Ziv factorization (LZ77) and the Run-Length encoded Burrows-Wheeler Transform (RLBWT) are two important tools in text compression and indexing, being their sizes $z$ and $r$ closely related to the amount of text…
We show how to merge two run-length compressed Burrows-Wheeler Transforms (RLBWTs) into a run-length compressed extended Burrows-Wheeler Transform (eBWT) in $O (r)$ space and $O ((r + L) \log (m + n))$ time, where $m$ and $n$ are the…
When building Burrows-Wheeler Transforms (BWTs) of truly huge datasets, prefix-free parsing (PFP) can use an unreasonable amount of memory. In this paper we show how if a dataset can be broken down into small datasets that are not very…
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…
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…
We study how the application of injective morphisms affects the number $r$ of equal-letter runs in the Burrows-Wheeler Transform (BWT). This parameter has emerged as a key repetitiveness measure in compressed indexing. We focus on the…
The Transformer has quickly become the dominant architecture for various pattern recognition tasks due to its capacity for long-range representation. However, transformers are data-hungry models and need large datasets for training. In…
Deep learning utilizing transformers has recently achieved a lot of success in many vital areas such as natural language processing, computer vision, anomaly detection, and recommendation systems, among many others. Among several merits of…
Subexponential parameterized algorithms are known for a wide range of natural problems on planar graphs, but the techniques are usually highly problem specific. The goal of this paper is to introduce a framework for obtaining…
We consider the Distinct Shortest Walks problem. Given two vertices $s$ and $t$ of a graph database $\mathcal{D}$ and a regular path query, enumerate all walks of minimal length from $s$ to $t$ that carry a label that conforms to the query.…
Perturbed graphic matroids are binary matroids that can be obtained from a graphic matroid by adding a noise of small rank. More precisely, r-rank perturbed graphic matroid M is a binary matroid that can be represented in the form I +P,…
Graphs with bounded highway dimension were introduced by Abraham et al. [SODA 2010] as a model of transportation networks. We show that any such graph can be embedded into a distribution over bounded treewidth graphs with arbitrarily small…
When training transformers on graph-structured data, incorporating information about the underlying topology is crucial for good performance. Topological masking, a type of relative position encoding, achieves this by upweighting or…
Given a graph $G = (V, E)$ with $n$ vertices and $m$ edges, the DominatingSet problem asks for a set $D \subseteq V$ of minimal cardinality such that every vertex either is in $D$ or adjacent to a member of $D$. Although there is little…
Prefix-free parsing (PFP) was introduced by Boucher et al. (2019) as a preprocessing step to ease the computation of Burrows-Wheeler Transforms (BWTs) of genomic databases. Given a string $S$, it produces a dictionary $D$ and a parse $P$ of…
In this paper we introduce trajectory-based labeling, a new variant of dynamic map labeling, where a movement trajectory for the map viewport is given. We define a general labeling model and study the active range maximization problem in…
Transformers have increasingly outperformed gated RNNs in obtaining new state-of-the-art results on supervised tasks involving text sequences. Inspired by this trend, we study the question of how Transformer-based models can improve the…
The goal of text ranking is to generate an ordered list of texts retrieved from a corpus in response to a query. Although the most common formulation of text ranking is search, instances of the task can also be found in many natural…