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The theory of multidimensional persistent homology was initially developed in the discrete setting, and involved the study of simplicial complexes filtered through an ordering of the simplices. Later, stability properties of…

Computational Geometry · Computer Science 2013-03-28 Niccolò Cavazza , Marc Ethier , Patrizio Frosini , Tomasz Kaczynski , Claudia Landi

Today's probabilistic language generators fall short when it comes to producing coherent and fluent text despite the fact that the underlying models perform well under standard metrics, e.g., perplexity. This discrepancy has puzzled the…

Computation and Language · Computer Science 2025-06-06 Clara Meister , Tiago Pimentel , Gian Wiher , Ryan Cotterell

With the development of large language models (LLMs), particularly with the introduction of the long reasoning chain technique, the reasoning ability of LLMs in complex problem-solving has been significantly enhanced. While acknowledging…

We explore a family of nested recurrence relations with arbitrary levels of nesting, which have an interpretation in terms of fixed points of morphisms over a countably infinite alphabet. Recurrences in this family are related to a number…

Combinatorics · Mathematics 2013-07-02 Marcel Celaya , Frank Ruskey

We develop a theory of persistent homology for directed simplicial complexes which detects persistent directed cycles in odd dimensions. We relate directed persistent homology to classical persistent homology, prove some stability results,…

Algebraic Topology · Mathematics 2023-06-06 David Méndez , Rubén J. Sánchez-García

Using a set of $\Lambda$CDM simulations of cosmic structure formation, we study the evolving connectivity and changing topological structure of the cosmic web using state-of-the-art tools of multiscale topological data analysis (TDA). We…

Biologists have long sought a way to explain how statistical properties of genetic sequences emerged and are maintained through evolution. On the one hand, non-random structures at different scales indicate a complex genome organisation. On…

Quantitative Methods · Quantitative Biology 2018-11-01 Giampaolo Cristadoro , Mirko Degli Esposti , Eduardo G. Altmann

Transformer-based language models are effective but complex, and understanding their inner workings and reasoning mechanisms is a significant challenge. Previous research has primarily explored how these models handle simple tasks like name…

Computation and Language · Computer Science 2025-05-20 Zeyuan Allen-Zhu , Yuanzhi Li

While vector-based language representations from pretrained language models have set a new standard for many NLP tasks, there is not yet a complete accounting of their inner workings. In particular, it is not entirely clear what aspects of…

Computation and Language · Computer Science 2021-04-16 Matteo Alleman , Jonathan Mamou , Miguel A Del Rio , Hanlin Tang , Yoon Kim , SueYeon Chung

Topological data analysis can provide insight on the structure of weighted graphs and digraphs. However, some properties underlying a given (di)graph are hardly mappable to simplicial complexes. We introduce \textit{steady} and…

Computational Geometry · Computer Science 2022-08-30 Mattia G. Bergomi , Massimo Ferri , Antonella Tavaglione

We continue the research on the generative capacity of contextual grammars where contexts are adjoined around whole words (externally) or around subwords (internally) which belong to special regular selection languages. All languages…

Formal Languages and Automata Theory · Computer Science 2022-09-01 Jürgen Dassow , Bianca Truthe

Persistent homology, a powerful mathematical tool for data analysis, summarizes the shape of data through tracking topological features across changes in different scales. Classical algorithms for persistent homology are often constrained…

Quantum Physics · Physics 2024-02-28 Bernardo Ameneyro , George Siopsis , Vasileios Maroulas

Persistent homology analysis provides means to capture the connectivity structure of data sets in various dimensions. On the mathematical level, by defining a metric between the objects that persistence attaches to data sets, we can…

Machine Learning · Computer Science 2019-06-12 Henri Riihimäki , José Licón-Saláiz

Persistence has proved to be a valuable tool to analyze real world data robustly. Several approaches to persistence have been attempted over time, some topological in flavor, based on the vector space-valued homology functor, other…

Algebraic Topology · Mathematics 2019-05-23 Mattia G. Bergomi , Pietro Vertechi

Language similarities can be caused by genetic relatedness, areal contact, universality, or chance. Colexification, i.e. a type of similarity where a single lexical form is used to convey multiple meanings, is underexplored. In our work, we…

Computation and Language · Computer Science 2024-01-08 Yiyi Chen , Johannes Bjerva

Network generators that capture the Internet's large-scale topology are crucial for the development of efficient routing protocols and modeling Internet traffic. Our ability to design realistic generators is limited by the incomplete…

Statistical Mechanics · Physics 2009-11-07 Soon-Hyung Yook , Hawoong Jeong , Albert-Laszlo Barabasi

Orthologous genes, which arise through speciation, play a key role in comparative genomics and functional inference. In particular, graph-based methods allow for the inference of orthology estimates without prior knowledge of the underlying…

Populations and Evolution · Quantitative Biology 2025-02-14 Anna Lindeberg , Guillaume E. Scholz , Nicolas Wieseke , Marc Hellmuth

Hypergraph data appear and are hidden in many places in the modern age. They are data structure that can be used to model many real data examples since their structures contain information about higher order relations among data points. One…

Social and Information Networks · Computer Science 2020-10-02 Dong Quan Ngoc Nguyen , Lin Xing , Lizhen Lin

Scientific data has been growing in both size and complexity across the modern physical, engineering, life and social sciences. Spatial structure, for example, is a hallmark of many of the most important real-world complex systems, but its…

Persistent Topology studies topological features of shapes by analyzing the lower level sets of suitable functions, called filtering functions, and encoding the arising information in a parameterized version of the Betti numbers, i.e. the…

Algebraic Topology · Mathematics 2010-05-05 Andrea Cerri , Patrizio Frosini