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The drive for reproducibility in the computational sciences has provoked discussion and effort across a broad range of perspectives: technological, legislative/policy, education, and publishing. Discussion on these topics is not new, but…

Quantitative Methods · Quantitative Biology 2018-10-10 Daniel G. Hurley , Joseph Cursons , Matthew Faria , David M. Budden , Vijay Rajagopal , Edmund J. Crampin

In the rapidly evolving software development landscape, Python stands out for its simplicity, versatility, and extensive ecosystem. Python packages, as units of organization, reusability, and distribution, have become a pressing concern,…

Software Engineering · Computer Science 2025-09-05 Haowei Quan , Junjie Wang , Xinzhe Li , Terry Yue Zhuo , Xiao Chen , Xiaoning Du

The trend toward open science increases the pressure on authors to provide access to the source code and data they used to compute the results reported in their scientific papers. Since sharing materials reproducibly is challenging, several…

Digital Libraries · Computer Science 2020-07-15 Markus Konkol , Daniel Nüst , Laura Goulier

Over the recent years the importance of numerical experiments has gradually been more recognized. Nonetheless, sufficient documentation of how computational results have been obtained is often not available. Especially in the scientific…

Mathematical Software · Computer Science 2021-05-10 Jörg Fehr , Jan Heiland , Christian Himpe , Jens Saak

Replication of experimental results has been a challenge faced by many scientific disciplines, including the field of machine learning. Recent work on the theory of machine learning has formalized replicability as the demand that an…

Machine Learning · Computer Science 2026-04-15 Eric Eaton , Marcel Hussing , Michael Kearns , Aaron Roth , Sikata Bela Sengupta , Jessica Sorrell

GPGPU architectures have become significantly more diverse in recent years, which has led to an emergence of a variety of specialized programming models and software stacks to support them. Portable programming models exist, but they…

Distributed, Parallel, and Cluster Computing · Computer Science 2025-09-08 Joshua H. Davis , Daniel Nichols , Ishan Khillan , Abhinav Bhatele

As software has become an integral part of scientific workflows, reproducible research practices must take it into account. In what way? Archiving source code is a necessary but insufficient condition. The ability to redeploy software…

Software Engineering · Computer Science 2021-12-09 Ludovic Courtès

While the recursive property of entropy is well known in information theory, it is rarely utilized in thermodynamics, despite entropy originating in this field. Moreover, computational tools to implement this concept within first-principles…

Materials Science · Physics 2026-04-21 Nigel Lee En Hew , Luke Allen Myers , Shun-Li Shang , Zi-Kui Liu

Training reinforcement learning agents at solving a given task is highly dependent on identifying optimal sets of hyperparameters and selecting suitable environment input / output configurations. This tedious process could be eased with a…

Machine Learning · Computer Science 2021-03-03 Pierre Aumjaud , David McAuliffe , Francisco Javier Rodríguez Lera , Philip Cardiff

Reinforcement learning (RL) is a versatile framework for optimizing long-term goals. Although many real-world problems can be formalized with RL, learning and deploying a performant RL policy requires a system designed to address several…

A central component of training in Reinforcement Learning (RL) is Experience: the data used for training. The mechanisms used to generate and consume this data have an important effect on the performance of RL algorithms. In this paper, we…

Machine Learning · Computer Science 2021-02-10 Albin Cassirer , Gabriel Barth-Maron , Eugene Brevdo , Sabela Ramos , Toby Boyd , Thibault Sottiaux , Manuel Kroiss

The interAdapt R package is designed to be used by statisticians and clinical investigators to plan randomized trials. It can be used to determine if certain adaptive designs offer tangible benefits compared to standard designs, in the…

Applications · Statistics 2014-06-19 Aaron Fisher , Harris Jaffee , Michael Rosenblum

There is a need for open-source libraries in emission tomography that (i) use modern and popular backend code to encourage community contributions and (ii) offer support for the multitude of reconstruction techniques available in recent…

OpenIIR runs hundreds of LLM-driven personas as parameterised, reproducible IR research experiments. Researchers configure agents across four kinds of multi-agent study (deliberative panels, social platforms, curated recommender feeds, and…

Information Retrieval · Computer Science 2026-05-15 Saber Zerhoudi

We introduce PyPulse, a Python package for imputation of biosignals in both clinical and wearable sensor settings. Missingness is commonplace in these settings and can arise from multiple causes, such as insecure sensor attachment or data…

Machine Learning · Computer Science 2024-12-10 Kevin Gao , Maxwell A. Xu , James M. Rehg , Alexander Moreno

The adoption of large language models (LLMs) as rerankers in multi-stage retrieval systems has gained significant traction in academia and industry. These models refine a candidate list of retrieved documents, often through carefully…

Information Retrieval · Computer Science 2025-05-27 Sahel Sharifymoghaddam , Ronak Pradeep , Andre Slavescu , Ryan Nguyen , Andrew Xu , Zijian Chen , Yilin Zhang , Yidi Chen , Jasper Xian , Jimmy Lin

We developed the pycraf Python package, which provides functions and procedures for various tasks related to spectrum-management compatibility studies. This includes an implementation of ITU-R Rec. P.452, which allows to calculate the path…

Instrumentation and Methods for Astrophysics · Physics 2018-05-30 B. Winkel , A. Jessner

Science is conducted collaboratively, often requiring the sharing of knowledge about computational experiments. When experiments include only datasets, they can be shared using Uniform Resource Identifiers (URIs) or Digital Object…

Databases · Computer Science 2018-06-19 Zhihao Yuan , Dai Hai Ton That , Siddhant Kothari , Gabriel Fils , Tanu Malik

Scientific research frequently involves the use of computational tools and methods. Providing thorough documentation, open-source code, and data -- the creation of reproducible computational research -- helps others understand a…

Digital Libraries · Computer Science 2022-09-14 Tim von Hahn , Chris K. Mechefske

Despite the explosion of interest in healthcare AI research, the reproducibility and benchmarking of those research works are often limited due to the lack of standard benchmark datasets and diverse evaluation metrics. To address this…

Machine Learning · Computer Science 2021-01-13 Yue Zhao , Zhi Qiao , Cao Xiao , Lucas Glass , Jimeng Sun