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Related papers: Full Computational Reproducibility in Biological S…

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Study reproducibility is essential to corroborate, build on, and learn from the results of scientific research but is notoriously challenging in bioinformatics, which often involves large data sets and complex analytic workflows involving…

Quantitative Methods · Quantitative Biology 2023-05-22 Christopher R. Keefe , Matthew R. Dillon , Chloe Herman , Mary Jewell , Colin V. Wood , Evan Bolyen , J. Gregory Caporaso

The reproducibility of scientific research has become a point of critical concern. We argue that openness and transparency are critical for reproducibility, and we outline an ecosystem for open and transparent science that has emerged…

Computers and Society · Computer Science 2018-09-27 Russell A. Poldrack , Krzysztof J. Gorgolewski , Gael Varoquaux

Replicability and reproducibility of experimental results are primary concerns in all the areas of science and IR is not an exception. Besides the problem of moving the field towards more reproducible experimental practices and protocols,…

Information Retrieval · Computer Science 2020-10-27 Timo Breuer , Nicola Ferro , Norbert Fuhr , Maria Maistro , Tetsuya Sakai , Philipp Schaer , Ian Soboroff

Reproducibility is an important requirement in evolutionary computation, where results largely depend on computational experiments. In practice, reproducibility relies on how algorithms, experimental protocols, and artifacts are documented…

Neural and Evolutionary Computing · Computer Science 2026-02-10 Francesca Da Ros , Tarik Začiragić , Aske Plaat , Thomas Bäck , Niki van Stein

The reproduction and replication of reported scientific results is a hot topic within the academic community. The retraction of numerous studies from a wide range of disciplines, from climate science to bioscience, has drawn the focus of…

Computational Engineering, Finance, and Science · Computer Science 2014-10-15 Tom Crick , Benjamin A. Hall , Samin Ishtiaq , Kenji Takeda

This is the second part of a small-scale explorative study in an effort to assess reproducibility issues specific to scientometrics research. This effort is motivated by the desire to generate empirical data to inform debates about…

Digital Libraries · Computer Science 2018-04-16 Theresa Velden , Sybille Hinze , Andrea Scharnhorst , Jesper Wiborg Schneider , Ludo Waltman

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

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

What makes a paper independently reproducible? Debates on reproducibility center around intuition or assumptions but lack empirical results. Our field focuses on releasing code, which is important, but is not sufficient for determining…

Machine Learning · Computer Science 2019-09-17 Edward Raff

With the recognized crisis of credibility in scientific research, there is a growth of reproducibility studies in computer science, and although existing surveys have reviewed reproducibility from various perspectives, especially very…

Software Engineering · Computer Science 2023-12-19 José Armando Hernández , Miguel Colom

Computational reproducibility is fundamental to trustworthy science, yet remains difficult to achieve in practice across various research workflows, including Jupyter notebooks published alongside scholarly articles. Environment drift,…

Software Engineering · Computer Science 2026-04-02 Sheeba Samuel , Daniel Mietchen , Hemanta Lo , Martin Gaedke

Background. Reproducibility is essential to the scientific method, but reproduction is often a laborious task. Recent works have attempted to automate this process and relieve researchers of this workload. However, due to varying…

Computers and Society · Computer Science 2026-01-09 Thijs Snelleman , Peter Lundestad Lawrence , Holger H. Hoos , Odd Erik Gundersen

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

Assessment of replicability is critical to ensure the quality and rigor of scientific research. In this paper, we discuss inference and modeling principles for replicability assessment. Targeting distinct application scenarios, we propose…

Methodology · Statistics 2021-05-11 Yi Zhao , Xiaoquan Wen

Computational reproducibility refers to obtaining consistent results when rerunning an experiment. Jupyter Notebook, a web-based computational notebook application, facilitates running, publishing, and sharing computational experiments…

Software Engineering · Computer Science 2025-09-30 A S M Shahadat Hossain , Colin Brown , David Koop , Tanu Malik

This is the first part of a small-scale explorative study in an effort to start assessing reproducibility issues specific to scientometrics research. This effort is motivated by the desire to generate empirical data to inform debates about…

Digital Libraries · Computer Science 2018-04-16 Ludo Waltman , Sybille Hinze , Andrea Scharnhorst , Jesper Wiborg Schneider , Theresa Velden

Achieving complete reproducibility in science, particularly in research fields such as biodiversity, is challenging due to analytical choices, bias and interpretation. Here, we examine examples of reproducibility in biological systematics,…

Other Quantitative Biology · Quantitative Biology 2025-08-01 Charles Morphy D. Santos , Luciana Campos Paulino , Michaella P. Andrade , Gabriel Tognella-Poccia , João Paulo Gois

Computational reproducibility is central to scientific credibility, yet verifying published results at scale remains costly. We develop an AI-assisted workflow for automated full-paper replication -- retrieving materials, reconstructing…

Econometrics · Economics 2026-03-27 Yiqing Xu , Leo Yang Yang

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

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