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Scientific processes rely on software as an important tool for data acquisition, analysis, and discovery. Over the years sustainable software development practices have made progress in being considered as an integral component of research.…

Software Engineering · Computer Science 2023-12-21 Akash Dhruv , Anshu Dubey

Since 2009, the deep learning revolution, which was triggered by the introduction of ImageNet, has stimulated the synergy between Machine Learning (ML)/Deep Learning (DL) and Software Engineering (SE). Meanwhile, critical reviews have…

Software Engineering · Computer Science 2020-08-14 Simin Wang , Liguo Huang , Jidong Ge , Tengfei Zhang , Haitao Feng , Ming Li , He Zhang , Vincent Ng

Context: Jupyter Notebook has emerged as a versatile tool that transforms how researchers, developers, and data scientists conduct and communicate their work. As the adoption of Jupyter notebooks continues to rise, so does the interest from…

Software Engineering · Computer Science 2026-01-06 Md Saeed Siddik , Hao Li , Cor-Paul Bezemer

Reproducibility should be a cornerstone of scientific research and is a growing concern among the scientific community and the public. Understanding how to design services and tools that support documentation, preservation and sharing is…

Human-Computer Interaction · Computer Science 2019-03-15 Sebastian S. Feger , Sünje Dallmeier-Tiessen , Albrecht Schmidt , Paweł W. Woźniak

Ascertaining reproducibility of scientific experiments is receiving increased attention across disciplines. We argue that the necessary skills are important beyond pure scientific utility, and that they should be taught as part of software…

Software Engineering · Computer Science 2022-03-11 Wolfgang Mauerer , Stefan Klessinger , Stefanie Scherzinger

We introduce the notion of a reproducible algorithm in the context of learning. A reproducible learning algorithm is resilient to variations in its samples -- with high probability, it returns the exact same output when run on two samples…

Machine Learning · Computer Science 2023-04-17 Russell Impagliazzo , Rex Lei , Toniann Pitassi , Jessica Sorrell

As the adoption of Deep Learning (DL) systems continues to rise, an increasing number of approaches are being proposed to test these systems, localise faults within them, and repair those faults. The best attestation of effectiveness for…

Software Engineering · Computer Science 2024-12-24 Gunel Jahangirova , Nargiz Humbatova , Jinhan Kim , Shin Yoo , Paolo Tonella

Machine learning is facing a 'reproducibility crisis' where a significant number of works report failures when attempting to reproduce previously published results. We evaluate the sources of reproducibility failures using a meta-analysis…

Machine Learning · Computer Science 2023-05-23 Iordanis Fostiropoulos , Bowman Brown , Laurent Itti

Deep learning achieves remarkable performance on pattern recognition, but can be vulnerable to defects of some important properties such as robustness and security. This tutorial is based on a stream of research conducted since the summer…

Software Engineering · Computer Science 2021-08-05 Nicolas Berthier , Youcheng Sun , Wei Huang , Yanghao Zhang , Wenjie Ruan , Xiaowei Huang

Context: Machine Learning (ML) significantly impacts Software Engineering (SE), but studies mainly focus on practitioners, neglecting researchers. This overlooks practices and challenges in teaching, researching, or reviewing ML…

Software Engineering · Computer Science 2024-12-02 Anamaria Mojica-Hanke , David Nader Palacio , Denys Poshyvanyk , Mario Linares-Vásquez , Steffen Herbold

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

Deep Learning (DL) has been widely adopted in diverse industrial domains, including autonomous driving, intelligent healthcare, and aided programming. Like traditional software, DL systems are also prone to faults, whose malfunctioning may…

Machine Learning · Computer Science 2026-01-01 Hanmo You , Zan Wang , Zishuo Dong , Luanqi Mo , Jianjun Zhao , Junjie Chen

The success of deep learning algorithms generally depends on large-scale data, while humans appear to have inherent ability of knowledge transfer, by recognizing and applying relevant knowledge from previous learning experiences when…

Machine Learning · Computer Science 2022-01-19 Junguang Jiang , Yang Shu , Jianmin Wang , Mingsheng Long

This paper investigates the reproducibility of computational science research and identifies key challenges facing the community today. It is the result of the First Summer School on Experimental Methodology in Computational Science…

As reproducibility becomes a greater concern, conferences have largely converged to a strategy of asking reviewers to indicate whether code was attached to a submission. This is part of a larger trend of taking action based on assumed…

Machine Learning · Computer Science 2022-04-12 Edward Raff , Andrew L. Farris

This paper focuses on Code Generation task that aims at generating relevant code fragments according to given natural language descriptions. In the process of software development, developers often encounter two scenarios. One is requested…

Software Engineering · Computer Science 2024-04-19 Zezhou Yang , Sirong Chen , Cuiyun Gao , Zhenhao Li , Ge Li , Michael Lyu

This article presents a study on the quality and execution of research code from publicly-available replication datasets at the Harvard Dataverse repository. Research code is typically created by a group of scientists and published together…

Software Engineering · Computer Science 2021-03-25 Ana Trisovic , Matthew K. Lau , Thomas Pasquier , Mercè Crosas

Recent studies have shown that the majority of published computational models in systems biology and physiology are not repeatable or reproducible. There are a variety of reasons for this. One of the most likely reasons is that given how…

Other Quantitative Biology · Quantitative Biology 2021-07-13 Herbert M. Sauro

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

In the rapidly evolving fields of Artificial Intelligence (AI) and Machine Learning (ML), the reproducibility crisis underscores the urgent need for clear validation methodologies to maintain scientific integrity and encourage advancement.…

Computers and Society · Computer Science 2025-04-01 Abhyuday Desai , Mohamed Abdelhamid , Nakul R. Padalkar
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