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Although reproducibility is a core tenet of the scientific method, it remains challenging to reproduce many results. Surprisingly, this also holds true for computational results in domains such as systems biology where there have been…

Quantitative Methods · Quantitative Biology 2021-04-13 Michael L. Blinov , John H. Gennari , Jonathan R. Karr , Ion I. Moraru , David P. Nickerson , Herbert M. Sauro

Computer science is also an experimental science. This is particularly the case for parallel computing, which is in a total state of flux, and where experiments are necessary to substantiate, complement, and challenge theoretical modeling…

Distributed, Parallel, and Cluster Computing · Computer Science 2013-08-19 Sascha Hunold , Jesper Larsson Träff

Computational physics increasingly depends on large simulation datasets generated by software that remains under active development for many years. In such settings, reproducibility requires not only well documented data but also explicit…

Computational Physics · Physics 2026-04-30 Markus Uehlein , Tobias Held , Christopher Seibel , Lukas G. Jonda , Baerbel Rethfeld , Sebastian T. Weber

Reproducibility should be a cornerstone of science as it enables validation and reuse. In recent years, the scientific community and the general public became increasingly aware of the reproducibility crisis, i.e. the wide-spread inability…

Human-Computer Interaction · Computer Science 2020-12-07 Sebastian Stefan Feger

To reproduce eScience, several challenges need to be solved: scientific workflows need to be automated; the involved software versions need to be provided in an unambiguous way; input data needs to be easily accessible; High-Performance…

Distributed, Parallel, and Cluster Computing · Computer Science 2025-01-30 Kessy Abarenkov , Anne Fouilloux , Helmut Neukirchen , Abdulrahman Azab

The high incidence of irreproducible research has led to urgent appeals for transparency and equitable practices in open science. For the scientific disciplines that rely on computationally intensive analyses of large data sets, a granular…

Reproducibility in research remains hindered by complex systems involving data, models, tools, and algorithms. Studies highlight a reproducibility crisis due to a lack of standardized reporting, code and data sharing, and rigorous…

Software Engineering · Computer Science 2024-11-05 Venkat S. Malladi , Maria Yazykova , Olesya Melnichenko , Yulia Dubinina

Small to medium-scale data science experiments often rely on research software developed ad-hoc by individual scientists or small teams. Often there is no time to make the research software fast, reusable, and open access. The consequence…

Software Engineering · Computer Science 2022-11-10 Moritz Schubotz , Ankit Satpute , Andre Greiner-Petter , Akiko Aizawa , Bela Gipp

Independent computational reproducibility of scientific results is rapidly becoming of pivotal importance in scientific progress as computation itself plays a more and more central role in so many branches of science. Historically,…

Quantitative Methods · Quantitative Biology 2016-08-25 Les Hatton , Gregory Warr

Many science advances have been possible thanks to the use of research software, which has become essential to advancing virtually every Science, Technology, Engineering and Mathematics (STEM) discipline and many non-STEM disciplines…

Software Engineering · Computer Science 2019-02-26 Daniel S. Katz , Patrick Aerts , Neil P. Chue Hong , Anshu Dubey , Sandra Gesing , Henry J. Neeman , David E. Pearah

Support teams of high-performance computing (HPC) systems often find themselves between a rock and a hard place: on one hand, they understandably administrate these large systems in a conservative way, but on the other hand, they try to…

Distributed, Parallel, and Cluster Computing · Computer Science 2015-07-28 Ludovic Courtès , Ricardo Wurmus

Developing software to undertake complex, compute-intensive scientific processes requires a challenging combination of both specialist domain knowledge and software development skills to convert this knowledge into efficient code. As…

Distributed, Parallel, and Cluster Computing · Computer Science 2013-09-05 Jeremy Cohen , Chris Cantwell , Neil Chue Hong , David Moxey , Malcolm Illingworth , Andrew Turner , John Darlington , Spencer Sherwin

Reproducibility of computationally-derived scientific discoveries should be a certainty. As the product of several person-years' worth of effort, results -- whether disseminated through academic journals, conferences or exploited through…

Computational Engineering, Finance, and Science · Computer Science 2015-06-17 Tom Crick , Benjamin A. Hall , Samin Ishtiaq

Recent reproducibility case studies have raised concerns showing that much of the deposited research has not been reproducible. One of their conclusions was that the way data repositories store research data and code cannot fully facilitate…

Digital Libraries · Computer Science 2020-06-18 Ana Trisovic , Philip Durbin , Tania Schlatter , Gustavo Durand , Sonia Barbosa , Danny Brooke , Mercè Crosas

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

In recent years, the research community, but also the general public, has raised serious questions about the reproducibility and replicability of scientific work. Since many studies include some kind of computational work, these issues are…

Software Engineering · Computer Science 2025-03-14 Lázaro Costa , Susana Barbosa , Jácome Cunha

The ubiquity of computation in modern scientific research inflicts new challenges for reproducibility. While most journals now require code and data be made available, the standards for organization, annotation, and validation remain lax,…

Other Quantitative Biology · Quantitative Biology 2022-10-07 Griffin Chure

In computational science and in computer science, research software is a central asset for research. Computational science is the application of computer science and software engineering principles to solving scientific problems, whereas…

Software Engineering · Computer Science 2019-08-19 Wilhelm Hasselbring , Leslie Carr , Simon Hettrick , Heather Packer , Thanassis Tiropanis

Reproducibility remains a central challenge in computational social science, where complex workflows, evolving software ecosystems, and inconsistent documentation hinder researchers ability to re-execute published methods. This study…

Human-Computer Interaction · Computer Science 2026-03-04 Fakhri Momeni , Sarah Sajid , Johannes Kiesel

Computational experiments have become essential for scientific discovery, allowing researchers to test hypotheses, analyze complex datasets, and validate findings. However, as computational experiments grow in scale and complexity, ensuring…

Distributed, Parallel, and Cluster Computing · Computer Science 2025-04-03 Eleni Adamidi , Panayiotis Deligiannis , Nikos Foutris , Thanasis Vergoulis