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Like other types of computational research, modeling and simulation of biological processes (biomodels) is still largely communicated without sufficient detail to allow independent reproduction of results. But reproducibility in this area…

Other Quantitative Biology · Quantitative Biology 2023-04-19 Pedro Mendes

Over the past few years, deep learning methods have been applied for a wide range of Software Engineering (SE) tasks, including in particular for the important task of automatically predicting and localizing faults in software. With the…

Software Engineering · Computer Science 2024-02-09 Adil Mukhtar , Dietmar Jannach , Franz Wotawa

Why are some research studies easy to reproduce while others are difficult? Casting doubt on the accuracy of scientific work is not fruitful, especially when an individual researcher cannot reproduce the claims made in the paper. There…

Digital Libraries · Computer Science 2023-08-25 Akhil Pandey Akella , David Koop , Hamed Alhoori

Replication of scientific experiments is critical to the advance of science. Unfortunately, the discipline of Computer Science has never treated replication seriously, even though computers are very good at doing the same thing over and…

General Literature · Computer Science 2013-04-15 Ian P. Gent

Reproducibility of computational studies is a hallmark of scientific methodology. It enables researchers to build with confidence on the methods and findings of others, reuse and extend computational pipelines, and thereby drive scientific…

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

Many research groups aspire to make data and code FAIR and reproducible, yet struggle because the data and code life cycles are disconnected, executable environments are often missing from published work, and technical skill requirements…

Reproducibility and comparability of empirical results are at the core tenet of the scientific method in any scientific field. To ease reproducibility of empirical studies, several benchmarks in software engineering research, such as…

Software Engineering · Computer Science 2021-04-01 José Campos , André Souto

Reproducibility is a key requirement for scientific progress. It allows the reproduction of the works of others, and, as a consequence, to fully trust the reported claims and results. In this work, we argue that, by facilitating…

Information Retrieval · Computer Science 2021-02-02 Alejandro Bellogín , Alan Said

Reproducibility is an important feature of science; experiments are retested, and analyses are repeated. Trust in the findings increases when consistent results are achieved. Despite the importance of reproducibility, significant work is…

Digital Libraries · Computer Science 2023-01-12 Akhil Pandey Akella , Hamed Alhoori , David Koop

An essential part of research and scientific communication is researchers' ability to reproduce the results of others. While there have been increasing standards for authors to make data and code available, many of these files are hard to…

Digital Libraries · Computer Science 2021-09-23 Layan Bahaidarah , Ethan Hung , Andreas F. De Melo Oliveira , Jyotsna Penumaka , Lukas Rosario , Ana Trisovic

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 the field of computational science and engineering, workflows often entail the application of various software, for instance, for simulation or pre- and postprocessing. Typically, these components have to be combined in arbitrarily…

Software Engineering · Computer Science 2022-11-15 Philipp Diercks , Dennis Gläser , Ontje Lünsdorf , Michael Selzer , Bernd Flemisch , Jörg F. Unger

Benchmarking, which involves collecting reference datasets and demonstrating method performances, is a requirement for the development of new computational tools, but also becomes a domain of its own to achieve neutral comparisons of…

Other Quantitative Biology · Quantitative Biology 2025-07-24 Izaskun Mallona , Charlotte Soneson , Ben Carrillo , Almut Luetge , Daniel Incicau , Reto Gerber , Anthony Sonrel , Mark D. Robinson

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

Software now lies at the heart of scholarly research. Here we argue that as well as being important from a methodological perspective, software should, in many instances, be recognised as an output of research, equivalent to an academic…

Computers and Society · Computer Science 2021-12-23 Caroline Jay , Robert Haines , Daniel S. Katz

Reproducibility is widely acknowledged as a fundamental principle in scientific research. Currently, the scientific community grapples with numerous challenges associated with reproducibility, often referred to as the ''reproducibility…

Software Engineering · Computer Science 2024-09-16 Benjamin A. Antunes , David R. C. Hill

Scientific advancement relies on the ability to share and reproduce results. When data analysis or calculations are carried out using software written by scientists there are special challenges around code versions, quality and code…

Software Engineering · Computer Science 2025-07-09 S. Lee , C. Myers , A. Yang , T. Zhang , S. J. L. Billinge

Reproducibility is a fundamental requirement of the scientific process since it enables outcomes to be replicated and verified. Computational scientific experiments can benefit from improved reproducibility for many reasons, including…

Databases · Computer Science 2019-09-04 Maria Luiza Mondelli , A. Townsend Peterson , Luiz M. R. Gadelha

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