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We introduce Metatheory.jl: a lightweight and performant general purpose symbolics and metaprogramming framework meant to simplify the act of writing complex Julia metaprograms and to significantly enhance Julia with a native term rewriting…

Programming Languages · Computer Science 2021-04-14 Alessandro Cheli

Biological systems with intertwined feedback loops pose a challenge to mathematical modeling efforts. Moreover, rare events, such as mutation and extinction, complicate system dynamics. Stochastic simulation algorithms are useful in…

Quantitative Methods · Quantitative Biology 2018-12-10 Alfonso Landeros , Timothy Stutz , Kevin L. Keys , Alexander Alekseyenko , Janet S. Sinsheimer , Kenneth Lange , Mary Sehl

Neural networks are typically sensitive to small input perturbations, leading to unexpected or brittle behaviour. We present RobustNeuralNetworks.jl: a Julia package for neural network models that are constructed to naturally satisfy a set…

Machine Learning · Computer Science 2025-10-01 Nicholas H. Barbara , Max Revay , Ruigang Wang , Jing Cheng , Ian R. Manchester

The goal of combining the robustness of neural networks and the expressiveness of symbolic methods has rekindled the interest in Neuro-Symbolic AI. Deep Probabilistic Programming Languages (DPPLs) have been developed for probabilistic logic…

Artificial Intelligence · Computer Science 2023-06-16 Arseny Skryagin , Daniel Ochs , Devendra Singh Dhami , Kristian Kersting

FlowClass.jl is a Julia package for classifying continuous-time dynamical systems into a hierarchy of structural classes: Gradient, Gradient-like, Morse-Smale, Structurally Stable, and General. Given a vector field…

Dynamical Systems · Mathematics 2025-12-16 Michael P. H. Stumpf

Applying dynamic logics to program verifications is a challenge, because their axiomatic rules for regular expressions can be difficult to be adapted to different program models. We present a novel dynamic logic, called DLp, which supports…

Logic in Computer Science · Computer Science 2026-02-11 Yuanrui Zhang

Stochastic Programming is a framework for modelling and solving problems of decision making under uncertainty. Stochastic Dynamic Programming is a branch of Stochastic Programming that takes a "functional equation" approach to the discovery…

Artificial Intelligence · Computer Science 2023-09-12 Roberto Rossi

Integrating computational fluid dynamics (CFD) software into optimization and machine-learning frameworks is hampered by the rigidity of classic computational languages and the slow performance of more flexible high-level languages.…

Fluid Dynamics · Physics 2023-04-18 Gabriel D. Weymouth , Bernat Font

A major trend in academia and data science is the rapid adoption of Bayesian statistics for data analysis and modeling, leading to the development of probabilistic programming languages (PPL). A PPL provides a framework that allows users to…

Instrumentation and Methods for Astrophysics · Physics 2021-02-15 James. W. Nightingale , Richard G. Hayes , Matthew Griffiths

We develop a new Low-level, First-order Probabilistic Programming Language (LF-PPL) suited for models containing a mix of continuous, discrete, and/or piecewise-continuous variables. The key success of this language and its compilation…

Machine Learning · Computer Science 2019-03-07 Yuan Zhou , Bradley J. Gram-Hansen , Tobias Kohn , Tom Rainforth , Hongseok Yang , Frank Wood

Combustion kinetic modeling is an integral part of combustion simulation, and extensive studies have been devoted to developing both high fidelity and computationally affordable models. Despite these efforts, modeling combustion kinetics is…

We present an efficient approach for writing architecture-agnostic parallel high-performance stencil computations in Julia, which is instantiated in the package ParallelStencil.jl. Powerful metaprogramming, costless abstractions and…

Distributed, Parallel, and Cluster Computing · Computer Science 2022-12-01 Samuel Omlin , Ludovic Räss

Julia is a mature general-purpose programming language, with a large ecosystem of libraries and more than 12000 third-party packages, which specifically targets scientific computing. As a language, Julia is as dynamic, interactive, and…

We present Trixi.jl, a Julia package for adaptive high-order numerical simulations of hyperbolic partial differential equations. Utilizing Julia's strengths, Trixi.jl is extensible, easy to use, and fast. We describe the main design choices…

Mathematical Software · Computer Science 2022-01-19 Hendrik Ranocha , Michael Schlottke-Lakemper , Andrew R. Winters , Erik Faulhaber , Jesse Chan , Gregor J. Gassner

HarmonicBalance.jl is a publicly available Julia package designed to simplify and solve systems of periodic time-dependent nonlinear ordinary differential equations. Time dependence of the system parameters is treated with the harmonic…

Mesoscale and Nanoscale Physics · Physics 2022-05-18 Jan Košata , Javier del Pino , Toni L. Heugel , Oded Zilberberg

Ensuring that safety-critical applications behave as intended is an important yet challenging task. Modeling languages like differential dynamic logic (dL) have proof calculi capable of proving guarantees for such applications. However, dL…

Formal Languages and Automata Theory · Computer Science 2024-10-08 Myra Dotzel , Stefan Mitsch , André Platzer

Many of today's probabilistic programming languages (PPLs) have brittle inference performance: the performance of the underlying inference algorithm is very sensitive to the precise way in which the probabilistic program is written. A…

Artificial Intelligence · Computer Science 2023-02-22 Ellie Y. Cheng , Todd Millstein , Guy Van den Broeck , Steven Holtzen

Probabilistic programming makes it easy to represent a probabilistic model as a program. Building an individual model, however, is only one step of probabilistic modeling. The broader challenge of probabilistic modeling is in understanding…

Programming Languages · Computer Science 2022-08-15 Ryan Bernstein

Domain-specific languages (DSLs) are routinely created to simplify difficult or specialized programming tasks. They expose useful abstractions and design patterns in the form of language constructs, provide static semantics to eagerly…

Programming Languages · Computer Science 2020-02-19 Ethan K. Jackson

We introduce DiffOpt.jl, a Julia library to differentiate through the solution of optimization problems with respect to arbitrary parameters present in the objective and/or constraints. The library builds upon MathOptInterface, thus…

Machine Learning · Computer Science 2023-08-01 Mathieu Besançon , Joaquim Dias Garcia , Benoît Legat , Akshay Sharma