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Mechanistic models are important tools to describe and understand biological processes. However, they typically rely on unknown parameters, the estimation of which can be challenging for large and complex systems. We present pyPESTO, a…

Data science relies on pipelines that are organized in the form of interdependent computational steps. Each step consists of various candidate algorithms that maybe used for performing a particular function. Each algorithm consists of…

Computer Vision and Pattern Recognition · Computer Science 2019-03-07 Aritra Chowdhury , Malik Magdin-Ismail , Bulent Yener

HIPSTER (Heavily Ionising Particle Standard Toolkit for Event Recognition) is an open source Python package designed to facilitate the use of TensorFlow in a high energy physics analysis context. The core functionality of the software is…

High Energy Physics - Experiment · Physics 2019-09-18 Adrian Bevan , Thomas Charman , Jonathan Hays

Representing the 3D environment with instance-aware semantic and geometric information is crucial for interaction-aware robots in dynamic environments. Nevertheless, creating such a representation poses challenges due to sensor noise,…

Robotics · Computer Science 2025-01-06 Gang Chen , Zhaoying Wang , Wei Dong , Javier Alonso-Mora

Exploring search spaces is one of the most unpredictable challenges that has attracted the interest of researchers for decades. One way to handle unpredictability is to characterise the search spaces and take actions accordingly. A…

Machine Learning · Computer Science 2022-09-14 Rafet Durgut , Mehmet Emin Aydin , Hisham Ihshaish , Abdur Rakib

The analysis of experimental results with Python often requires writing many code scripts which all need access to the same set of functions. In a common field of research, this set will be nearly the same for many users. The qspec Python…

Computational Physics · Physics 2025-03-18 Patrick Müller , Wilfried Nörtershäuser

Evaluating the efficiency of algorithmic code requires test cases that expose runtime bottlenecks. Previous methods generate efficiency test cases either by increasing input size or by generating code-specific inputs that make the given…

Artificial Intelligence · Computer Science 2026-05-28 Soohan Lim , Joonghyuk Hahn , Hyundong Jin , Yo-Sub Han

Today, artificial intelligence systems driven by machine learning algorithms can be in a position to take important, and sometimes legally binding, decisions about our everyday lives. In many cases, however, these systems and their actions…

Machine Learning · Computer Science 2022-08-26 Kacper Sokol , Raul Santos-Rodriguez , Peter Flach

The increasingly sophisticated environment in which attackers operate makes software security an even greater challenge in open-source projects, where malicious packages are prevalent. Static analysis tools, such as Malcontent, are highly…

Cryptography and Security · Computer Science 2026-01-27 Duc-Ly Vu , Thanh-Cong Nguyen , Minh-Khanh Vu , Ngoc-Thanh Nguyen , Kim-Anh Do Thi

The performance of optimization algorithms relies crucially on their parameterizations. Finding good parameter settings is called algorithm tuning. The sequential parameter optimization (SPOT) package for R is a toolbox for tuning and…

Mathematical Software · Computer Science 2021-03-05 Thomas Bartz-Beielstein , Martin Zaefferer , Frederik Rehbach

Analyzing air pollution data is challenging as there are various analysis focuses from different aspects: feature (what), space (where), and time (when). As in most geospatial analysis problems, besides high-dimensional features, the…

Machine Learning · Computer Science 2022-02-14 Yun-Hsin Kuo , Takanori Fujiwara , Charles C. -K. Chou , Chun-houh Chen , Kwan-Liu Ma

Even todays most advanced machine learning models are easily fooled by almost imperceptible perturbations of their inputs. Foolbox is a new Python package to generate such adversarial perturbations and to quantify and compare the robustness…

Machine Learning · Computer Science 2018-03-21 Jonas Rauber , Wieland Brendel , Matthias Bethge

Meta-analysis is a data aggregation method that establishes an overall and objective level of evidence based on the results of several studies. It is necessary to maintain a high level of homogeneity in the aggregation of data collected…

Phase retrieval deals with the estimation of complex-valued signals solely from the magnitudes of linear measurements. While there has been a recent explosion in the development of phase retrieval algorithms, the lack of a common interface…

Optimization and Control · Mathematics 2017-12-01 Rohan Chandra , Ziyuan Zhong , Justin Hontz , Val McCulloch , Christoph Studer , Tom Goldstein

Raman spectroscopy is a non-destructive and label-free chemical analysis technique, which plays a key role in the analysis and discovery cycle of various branches of science. Nonetheless, progress in Raman spectroscopic analysis is still…

Nowadays, as machine-learned software quickly permeates our society, we are becoming increasingly vulnerable to programming errors in the data pre-processing or training software, as well as errors in the data itself. In this paper, we…

Programming Languages · Computer Science 2020-07-22 Caterina Urban

Predictive process monitoring is a subfield of process mining that aims to estimate case or event features for running process instances. Such predictions are of significant interest to the process stakeholders. However, state-of-the-art…

In time series analysis, traditional bootstrapping methods often fall short due to their assumption of data independence, a condition rarely met in time-dependent data. This paper introduces tsbootstrap, a python package designed…

Applications · Statistics 2024-04-24 Sankalp Gilda , Benedikt Heidrich , Franz Kiraly

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

Process mining is a set of techniques that are used by organizations to understand and improve their operational processes. The first essential step in designing any process reengineering procedure is to find process improvement…

Artificial Intelligence · Computer Science 2022-08-30 Christian Kohlschmidt , Mahnaz Sadat Qafari , Wil M. P. van der Aalst