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Phylogenetic networks are used to study evolutionary relationships between species in biology. Such networks are often categorized into classes by their topological features, which stem from both biological and computational motivations. We…

Combinatorics · Mathematics 2020-04-17 Leo van Iersel , Remie Janssen , Mark Jones , Yukihiro Murakami , Norbert Zeh

Hierarchical Petri nets allow a more abstract view and reconfigurable Petri nets model dynamic structural adaptation. In this contribution we present the combination of reconfigurable Petri nets and hierarchical Petri nets yielding…

Discrete Mathematics · Computer Science 2018-02-14 Julia Padberg

Graph transformation systems (GTS) have been successfully proposed as a general, theoretically sound model for concurrency. Petri nets (PN), on the other side, are a central and intuitive formalism for concurrent or distributed systems,…

Formal Languages and Automata Theory · Computer Science 2019-09-05 Lorenzo Capra

During the last decade, various approaches have been put forward to integrate business processes with different types of data. Each of such approaches reflects specific demands in the whole process-data integration spectrum. One particular…

Artificial Intelligence · Computer Science 2020-06-12 Silvio Ghilardi , Alessandro Gianola , Marco Montali , Andrey Rivkin

This thesis (defended 10/07/2019) develops a theory of networks of hybrid open systems and morphisms. It builds upon a framework of networks of continuous-time open systems as product and interconnection. We work out categorical notions for…

Dynamical Systems · Mathematics 2019-12-30 James Schmidt

Reversible computation is an emerging computing paradigm that allows any sequence of operations to be executed in reverse order at any point during computation. Its appeal lies in its potential for lowpower computation and its relevance to…

Logic in Computer Science · Computer Science 2023-11-02 Kamila Barylska , Anna Gogolinska , Lukasz Mikulski , Anna Philippou , Marcin Piatkowski , Kyriaki Psara

We give a definition of $\mathsf{Q}$-net, a generalization of Petri nets based on a Lawvere theory $\mathsf{Q}$, for which many existing variants of Petri nets are a special case. This definition is functorial with respect to change in…

Category Theory · Mathematics 2020-11-25 Jade Master

We develop techniques for determining the fibers of a morphism of curves $\phi: C \to D$ over a nonarchimedean local field $K$. These results have applications to studying closed point on curves over global fields since closed points on $C$…

Number Theory · Mathematics 2025-09-23 Irmak Balçik , Stephanie Chan , Yuan Liu , Bianca Viray

In this paper we introduce the notion of spread net. Spread nets are (safe) Petri nets equipped with vector clocks on places and with ticking functions on transitions, and are such that vector clocks are consistent with the ticking of…

Logic in Computer Science · Computer Science 2018-10-19 Eric Fabre , G. Michele Pinna

This thesis aims to develop a compositional theory for the operational semantics of networks. The networks considered are described by either internal or enriched graphs. In the internal case we focus on $\mathsf{Q}$-nets, a generalization…

Category Theory · Mathematics 2021-05-28 Jade Master

This work derives closed-form expressions computing the expectation of co-presence and of number of co-occurrences of nodes on paths sampled from a network according to general path weights (a bag of paths). The underlying idea is that two…

Machine Learning · Computer Science 2021-08-24 Guillaume Guex , Sylvain Courtain , Marco Saerens

Brain can be represented as a network, where regions are the nodes and relations between the regions are edges. Within a network, co-existence of cooperative and competitive relationships between different nodes is called coopetition.…

Neurons and Cognition · Quantitative Biology 2018-02-13 Subhadip Paul , Satyam Mukherjee , Sagnik Bhattacharyya

We introduce a class of graphs with coloured edges to encode subsystems of the classical root systems, which in particular classify them up to equivalence. We further use the graphs to describe root-kernel intersections, as well as…

Rings and Algebras · Mathematics 2024-05-21 Gabriele Rembado

In mathematical phylogenetics, evolutionary relationships are often represented by trees and networks. The latter are typically used whenever the relationships cannot be adequately described by a tree, which happens when so-called…

Populations and Evolution · Quantitative Biology 2025-12-05 Mirko Wilde , Mareike Fischer

The Fundamental Morphism Theorem is a categorical version of the First Noether Isomorphism Theorem for categories that do not have kernels or cokernels. We consider two categories of graphs. Both categories will admit graphs with multiple…

Combinatorics · Mathematics 2018-08-31 Tien Chih , Demitri Plessas

We consider approaches for causal semantics of Petri nets, explicitly representing dependencies between transition occurrences. For one-safe nets or condition/event-systems, the notion of process as defined by Carl Adam Petri provides a…

Logic in Computer Science · Computer Science 2021-03-02 Rob van Glabbeek , Ursula Goltz , Jens-Wolfhard Schicke

A proper vertex colouring of a graph is \emph{nested} if the vertices of each of its colour classes can be ordered by inclusion of their open neighbourhoods. Through a relation to partially ordered sets, we show that the nested chromatic…

Combinatorics · Mathematics 2013-06-04 David Cook

In this paper, we introduce the concept of up-color kernel, which is a generalization of a kernel for vertex-colored digraphs. We give sufficient and necessary conditions for several families of digraphs to have an up-color kernel, as well…

Combinatorics · Mathematics 2025-03-25 Mucuy-kak Guevara , Teresa I. Hoekstra-Mendoza , Miguel Licona-Velazquez

This paper presents the benefits of formal modelling and verification techniques for self-stabilising distributed algorithms. An algorithm is studied, that takes a set of processes connected by a tree topology and converts it to a ring…

Distributed, Parallel, and Cluster Computing · Computer Science 2016-01-18 Camille Coti , Charles Lakos , Laure Petrucci

Uniform coloured Petri nets can be abstracted to their skeleton, the place/transition net that simply turns the coloured tokens into black tokens. A coloured net and its skeleton are related by a net morphism. For the application of the…

Logic in Computer Science · Computer Science 2023-06-22 Sophie Wallner , Karsten Wolf