相关论文: Wheeler maps

Matching statistics were introduced to solve the approximate string matching problem, which is a recurrent subroutine in bioinformatics applications. In 2010, Ohlebusch et al. [SPIRE 2010] proposed a time and space efficient algorithm for…

The compact directed acyclic word graph (CDAWG) of a string $T$ of length $n$ takes space proportional just to the number $e$ of right extensions of the maximal repeats of $T$, and it is thus an appealing index for highly repetitive…

Wheeler nondeterministic finite automata (WNFAs) were introduced as a generalization of prefix sorting from strings to labeled graphs. WNFAs admit optimal solutions to classic hard problems on labeled graphs and languages. The problem of…

Width-based planning methods deal with conjunctive goals by decomposing problems into subproblems of low width. Algorithms like SIW thus fail when the goal is not easily serializable in this way or when some of the subproblems have a high…

A graph $G$ covers a graph $H$ if there exists a locally bijective homomorphism from $G$ to $H$. We deal with regular covers in which this locally bijective homomorphism is prescribed by an action of a subgroup of ${\rm Aut}(G)$. Regular…

It is well-known that checking whether a given string $w$ matches a given regular expression $r$ can be done in quadratic time $O(|w|\cdot |r|)$ and that this cannot be improved to a truly subquadratic running time of $O((|w|\cdot…

Graph is an usual representation of relational data, which are ubiquitous in manydomains such as molecules, biological and social networks. A popular approach to learningwith graph structured data is to make use of graph kernels, which…

We solve the dynamic Predecessor Problem with high probability (whp) in constant time, using only $n^{1+\delta}$ bits of memory, for any constant $\delta > 0$. The input keys are random wrt a wider class of the well studied and practically…

We study the fundamental question of how efficiently suffix array entries can be accessed when the array cannot be stored explicitly. The suffix array $SA_T[1..n]$ of a text $T$ of length $n$ encodes the lexicographic order of its suffixes…

Subgraph GNNs are provably expressive neural architectures that learn graph representations from sets of subgraphs. Unfortunately, their applicability is hampered by the computational complexity associated with performing message passing on…

The Burrows-Wheeler Transform (BWT) is a fundamental component in many data structures for text indexing and compression, widely used in areas such as bioinformatics and information retrieval. The extended BWT (eBWT) generalizes the…

Plug-and-play functionality allows deep learning models to adapt well to different tasks without requiring any parameters modified. Recently, prefix-tuning was shown to be a plug-and-play method on various text generation tasks by simply…

A significant challenge in the tagging of boosted objects via machine-learning technology is the prohibitive computational cost associated with training sophisticated models. Nevertheless, the universality of QCD suggests that a large…

Drawing network maps automatically comprises two challenging steps, namely laying out the map and placing non-overlapping labels. In this paper we tackle the problem of labeling an already existing network map considering the application of…

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…

This paper presents a new graph isomorphism invariant, called $\mathfrak{w}$-labeling, that can be used to design a polynomial-time algorithm for solving the graph isomorphism problem for various graph classes. For example, all…

Recently, there has been growing interest in the ability of Transformer-based models to produce meaningful embeddings of text with several applications, such as text similarity. Despite significant progress in the field, the explanations…

A major challenge of multi-label text classification (MLTC) is to stimulatingly exploit possible label differences and label correlations. In this paper, we tackle this challenge by developing Label-Wise Pre-Training (LW-PT) method to get a…

In the Disjoint Shortest Paths problem one is given a graph $G$ and a set $\mathcal{T}=\{(s_1,t_1),\dots,(s_k,t_k)\}$ of $k$ vertex pairs. The question is whether there exist vertex-disjoint paths $P_1,\dots,P_k$ in $G$ so that each $P_i$…

We present an efficient algorithm for finding all approximate occurrences of a given pattern $p$ of length $m$ in a text $t$ of length $n$ allowing for translocations of equal length adjacent factors and inversions of factors. The algorithm…