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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

Artificial intelligence (AI) has significantly advanced Earth sciences, yet its full potential in to comprehensively modeling Earth's complex dynamics remains unrealized. Geoscience foundation models (GFMs) emerge as a paradigm-shifting…

Artificial Intelligence · Computer Science 2024-11-13 Hao Zhang , Jin-Jian Xu , Hong-Wei Cui , Lin Li , Yaowen Yang , Chao-Sheng Tang , Niklas Boers

Integrated information theory provides a mathematical framework to fully characterize the cause-effect structure of a physical system. Here, we introduce PyPhi, a Python software package that implements this framework for causal analysis…

Neurons and Cognition · Quantitative Biology 2018-08-16 William G. P. Mayner , William Marshall , Larissa Albantakis , Graham Findlay , Robert Marchman , Giulio Tononi

We introduce pymovements: a Python package for analyzing eye-tracking data that follows best practices in software development, including rigorous testing and adherence to coding standards. The package provides functionality for key…

PetroFit is an open-source Python package, based on Astropy and Photutils, that can calculate Petrosian profiles and fit galaxy images. It offers end-to-end tools for making accurate photometric measurements, estimating morphological…

Instrumentation and Methods for Astrophysics · Physics 2022-04-19 Robel Geda , Steven Crawford , Lucas R. Hunt , Matthew A. Bershady , Erik J. Tollerud , Solohery M. Randriamampandry

The study of complex many-body systems via analysis of the trajectories of the units that dynamically move and interact within them is a non-trivial task. The workflow for extracting meaningful information from the raw trajectory data is…

Materials Science · Physics 2025-10-31 Simone Martino , Matteo Becchi , Andrew Tarzia , Daniele Rapetti , Giovanni M. Pavan

The usage of the high-level scripting language Python has enabled new mechanisms for data interrogation, discovery and visualization of scientific data. We present yt, an open source, community-developed astrophysical analysis and…

Instrumentation and Methods for Astrophysics · Physics 2011-12-21 Matthew J. Turk , Britton D. Smith

This paper briefly reports the GeoMFree3D, a meshfree / meshless software package designed for analyzing the problems of large deformations and crack propagations of rock and soil masses in geotechnics. The GeoMFree3D is developed based on…

Computational Physics · Physics 2020-06-05 Gang Mei , Nengxiong Xu , Liangliang Xu , Yazhe Li

FluidDyn is a project to foster open-science and open-source in the fluid dynamics community. It is thought of as a research project to channel open-source dynamics, methods and tools to do science. We propose a set of Python packages…

Other Computer Science · Computer Science 2019-04-10 Pierre Augier , Ashwin Vishnu Mohanan , Cyrille Bonamy

Earth observation (EO) is crucial for monitoring environmental changes, responding to disasters, and managing natural resources. In this context, foundation models facilitate remote sensing image analysis to retrieve relevant geoinformation…

Computer Vision and Pattern Recognition · Computer Science 2025-06-16 Francesc Marti-Escofet , Benedikt Blumenstiel , Linus Scheibenreif , Paolo Fraccaro , Konrad Schindler

Geotechnical and seismic applications, ranging from site response analysis and HVSR simulations to dispersion curve modeling, increasingly depend on large, well-labeled datasets for robust model development. However, the scarcity of…

Geophysics · Physics 2025-12-16 Mersad Fathizadeh , Hosna Kianfar

Modeling environmental ecosystems is essential for effective resource management, sustainable development, and understanding complex ecological processes. However, traditional methods frequently struggle with the inherent complexity,…

Machine Learning · Computer Science 2025-03-06 Runlong Yu , Shengyu Chen , Yiqun Xie , Xiaowei Jia

Modeling environmental ecosystems is essential for effective resource management, sustainable development, and understanding complex ecological processes. However, traditional data-driven methods face challenges in capturing inherently…

Machine Learning · Computer Science 2025-04-08 Runlong Yu , Shengyu Chen , Yiqun Xie , Huaxiu Yao , Jared Willard , Xiaowei Jia

Process mining, i.e., a sub-field of data science focusing on the analysis of event data generated during the execution of (business) processes, has seen a tremendous change over the past two decades. Starting off in the early 2000's, with…

Software Engineering · Computer Science 2019-05-16 Alessandro Berti , Sebastiaan J. van Zelst , Wil van der Aalst

Many numerical simulation tools have been developed and are on the market, but there is still a strong need for appropriate tools capable of simulating multi-field problems, especially in aeroacoustics. Therefore, openCFS provides an…

Computational Engineering, Finance, and Science · Computer Science 2026-01-12 Andreas Wurzinger , Patrick Heidegger , Stefan Schoder

Soils and sediments are soft, amorphous materials with complex microstructures and mechanical properties, that are also building blocks for industrial materials such as concrete. These Earth-mediated materials evolve under prolonged…

Soft Condensed Matter · Physics 2026-05-19 Shravan Pradeep , Emanuela Del Gado , Douglas J. Jerolmack , Paulo E. Arratia

partycls is a Python framework for cluster analysis of systems of interacting particles. By grouping particles that share similar structural or dynamical properties, partycls enables rapid and unsupervised exploration of the system's…

Computational Physics · Physics 2021-11-22 Joris Paret , Daniele Coslovich

The study of trajectories is often a core task in several research fields. In environmental modelling, trajectories are crucial to study fluid pollution, animal migrations, oil slick patterns or land movements. In this contribution, we…

Computation · Statistics 2022-09-23 A. Reyes , G. Viera-López , J. J. Morgado-Vega , E. Altshuler

This paper presents a lightweight, open-source and high-performance python package for solving peridynamics problems in solid mechanics. The development of this solver is motivated by the need for fast analysis tools to achieve the large…

Software Engineering · Computer Science 2021-09-15 B. Boys , T. J. Dodwell , M. Hobbs , M. Girolami

Trajectories, sequentially measured quantities that form a path, are an important presence in many different fields, from hadronic beams in physics to electrocardiograms in medicine. Trajectory anal-ysis requires the quantification and…

Quantitative Methods · Quantitative Biology 2023-08-23 Maurício Moreira-Soares , Eduardo Mossmann , Rui D. M. Travasso , José Rafael Bordin