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Reconstructing network connectivity from the collective dynamics of a system typically requires access to its complete continuous-time evolution although these are often experimentally inaccessible. Here we propose a theory for revealing…

Neurons and Cognition · Quantitative Biology 2018-08-08 Jose Casadiego , Dimitra Maoutsa , Marc Timme

Petri networks and network models are two frameworks for the compositional design of systems of interacting entities. Here we show how to combine them using the concept of a "catalyst": an entity that is neither destroyed nor created by any…

Category Theory · Mathematics 2024-08-07 John C. Baez , John Foley , Joe Moeller

We provide a counterexample to a conjecture by Thiagarajan (1996 and 2002) that regular event structures correspond exactly to event structures obtained as unfoldings of finite 1-safe Petri nets. The same counterexample is used to disprove…

Formal Languages and Automata Theory · Computer Science 2020-12-16 Jérémie Chalopin , Victor Chepoi

It is useful to have a criterion for when the predictions of an operational theory should be considered classically explainable. Here we take the criterion to be that the theory admits of a generalized-noncontextual ontological model.…

Quantum Physics · Physics 2024-03-14 David Schmid , John H. Selby , Matthew F. Pusey , Robert W. Spekkens

Assigning a satisfactory truly concurrent semantics to Petri nets with confusion and distributed decisions is a long standing problem, especially if one wants to resolve decisions by drawing from some probability distribution. Here we…

Logic in Computer Science · Computer Science 2023-06-22 Roberto Bruni , Hernán Melgratti , Ugo Montanari

The mathematical formalisms used to model biological systems induce both latent and ambiguous assumptions that can limit or distort their representational capabilities. Developing formalisms that can represent systems more precisely is…

Quantitative Methods · Quantitative Biology 2026-05-25 Léo Diaz , Sean T. Vittadello , Michael P. H. Stumpf

A wide variety of models for concurrent programs has been proposed during the past decades, each one focusing on various aspects of computations: trace equivalence, causality between events, conflicts and schedules due to resource accesses,…

Distributed, Parallel, and Cluster Computing · Computer Science 2012-06-12 Eric Goubault , Samuel Mimram

Non-interference, in transitive or intransitive form, is defined here over unbounded (Place/Transition) Petri nets. The definitions are adaptations of similar, well-accepted definitions introduced earlier in the framework of labelled…

Cryptography and Security · Computer Science 2011-03-01 Eike Best , Philippe Darondeau , Roberto Gorrieri

Social network research has begun to take advantage of fine-grained communications regarding coordination, decision-making, and knowledge sharing. These studies, however, have not generally analyzed how external events are associated with a…

Social and Information Networks · Computer Science 2016-02-02 Daniel M. Romero , Brian Uzzi , Jon Kleinberg

The execution of different cases of a process is often restricted by inter-case dependencies through e.g., queueing or shared resources. Various high-level Petri net formalisms have been proposed that are able to model and analyze…

Formal Languages and Automata Theory · Computer Science 2023-04-12 Dominique Sommers , Natalia Sidorova , Boudewijn F. van Dongen

It is known for decades that computer-based systems cannot be understood without a concept of modularization and decomposition. We suggest a universal, expressive, intuitively attractive composition operator for Petri nets, combined with a…

Software Engineering · Computer Science 2022-02-07 Peter Fettke , Wolfgang Reisig

This paper describes a stand-alone, no-frills tool supporting the analysis of (labelled) place/transition Petri nets and the synthesis of labelled transition systems into Petri nets. It is implemented as a collection of independent,…

Logic in Computer Science · Computer Science 2015-08-21 Eike Best , Uli Schlachter

We found that neither randomness in the ER model nor the preferential attachment in the PA model is the mechanism of community structures of networks, that community structures are universal in real networks, that community structures are…

Social and Information Networks · Computer Science 2013-11-18 Angsheng Li , Yicheng Pan , Jiankou Li

Convergence is a fundamental topic in analysis that is most commonly modelled using topology. However, there are many natural convergences that are not given by any topology; e.g., convergence almost everywhere of a sequence of measurable…

Functional Analysis · Mathematics 2021-03-03 M. O'Brien , V. G. Troitsky , J. H. van der Walt

This chapter reviews four notions of system structure, three of which are contextual and classic (i.e. the complete computational structure linked to a state space model, the sparsity pattern of a transfer function, and the interconnection…

Systems and Control · Computer Science 2014-06-10 Vasu Chetty , Sean Warnick

A model of an information system describes its processes and how resources are involved in these processes to manipulate data objects. This paper presents an extension to the Petri nets formalism suitable for describing information systems…

Formal Languages and Automata Theory · Computer Science 2026-04-08 Jan Martijn E. M. van der Werf , Andrey Rivkin , Marco Montali , Artem Polyvyanyy

Our objective is to design a controlled system with a simple method for discrete event systems based on Petri nets. It is possible to construct the Petri net model of a system and the specification separately. By synchronous composition of…

Information Theory · Computer Science 2009-01-28 Abbas Dideban , Hassane. Alla

Petri net unfoldings are a useful tool to tackle state-space explosion in verification and related tasks. Moreover, their structure allows to access directly the relations of causal precedence, concurrency, and conflict between events.…

Logic in Computer Science · Computer Science 2011-06-08 Stefan Haar , Christian Kern , Stefan Schwoon

This paper exploits extended Bayesian networks for uncertainty reasoning on Petri nets, where firing of transitions is probabilistic. In particular, Bayesian networks are used as symbolic representations of probability distributions,…

Artificial Intelligence · Computer Science 2020-10-01 Rebecca Bernemann , Benjamin Cabrera , Reiko Heckel , Barbara König

To any finite ordered subset and any finite partition of a group a set of tuples of positive integers, named as configurations, is associated that describes the group's behavior. The present paper provides an exposition of this notion and…

Group Theory · Mathematics 2018-04-24 Akram Yousofzadeh