Search

String diagrams are a powerful and intuitive graphical syntax, originating in theoretical physics and later formalised in the context of symmetric monoidal categories. In recent years, they have found application in the modelling of various computational structures, in fields as diverse as Computer Science, Physics, Control Theory, Linguistics, and Biology. In several of these proposals, transformations of systems are modelled as rewrite rules of diagrams. These developments require a mathematical foundation for string diagram rewriting: whereas rewrite theory for terms is well-understood, the two-dimensional nature of string diagrams poses quite a few additional challenges. This work systematises and expands a series of recent conference papers, laying down such a foundation. As a first step, we focus on the case of rewrite systems for string diagrammatic theories that feature a Frobenius algebra. This common structure provides a more permissive notion of composition than the usual one available in monoidal categories, and has found many applications in areas such as concurrency, quantum theory, and electrical circuits. Notably, this structure provides an exact correspondence between the syntactic notion of string diagrams modulo Frobenius structure and the combinatorial structure of hypergraphs. Our work introduces a combinatorial interpretation of string diagram rewriting modulo Frobenius structures in terms of double-pushout hypergraph rewriting. We prove this interpretation to be sound and complete and we also show that the approach can be generalised to rewriting modulo multiple Frobenius structures. As a proof of concept, we show how to derive from these results a termination strategy for Interacting Bialgebras, an important rewrite theory in the study of quantum circuits and signal flow graphs. [ABSTRACT FROM AUTHOR]

In this paper, we address the problem of proving confluence for string diagram rewriting, which was previously shown to be characterised combinatorially as double-pushout rewriting with interfaces (DPOI) on (labelled) hypergraphs. For standard DPO rewriting without interfaces, confluence for terminating rewriting systems is, in general, undecidable. Nevertheless, we show here that confluence for DPOI, and hence string diagram rewriting, is decidable. We apply this result to give effective procedures for deciding local confluence of symmetric monoidal theories with and without Frobenius structure by critical pair analysis. For the latter, we introduce the new notion of path joinability for critical pairs, which enables finitely many joins of a critical pair to be lifted to an arbitrary context in spite of the strong non-local constraints placed on rewriting in a generic symmetric monoidal theory. [ABSTRACT FROM AUTHOR]

• First-of-its-kind general framework for a CTMC theory of stochastic rewriting systems for rules with conditions. • New rule-algebraic restricted rewriting theory formalism. • First-of-its-kind encoding of bio- and organo-chemical reaction systems via rule-algebraic restricted rewriting theory. The Kappa biochemistry and the MØD organic chemistry frameworks are amongst the most intensely developed applications of rewriting-based methods in the life sciences to date. A typical feature of these types of rewriting theories is the necessity to implement certain structural constraints on the objects to be rewritten (a protein is empirically found to have a certain signature of sites, a carbon atom can form at most four bonds,...). In this paper, we contribute a number of original developments that permit to implement a universal theory of continuous-time Markov chains (CTMCs) for stochastic rewriting systems. Our core mathematical concepts are a novel rule algebra construction for the relevant setting of rewriting rules with conditions, both in Double- and in Sesqui-Pushout semantics, augmented by a suitable stochastic mechanics formalism extension that permits to derive dynamical evolution equations for pattern-counting statistics. A second main contribution of our paper is a novel framework of restricted rewriting theories, which comprises a rule-algebra calculus under the restriction to so-called constraint-preserving completions of application conditions (for rules considered to act only upon objects of the underlying category satisfying a globally fixed set of structural constraints). This novel framework in turn renders a faithful encoding of bio- and organo-chemical rewriting in the sense of Kappa and MØD possible, which allows us to derive a rewriting-based formulation of reaction systems including a full-fledged CTMC semantics as instances of our universal CTMC framework. While offering an interesting new perspective and conceptual simplification of this semantics in the setting of Kappa , both the formal encoding and the CTMC semantics of organo-chemical reaction systems as motivated by the MØD framework are the first such results of their kind. [ABSTRACT FROM AUTHOR]