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Interactive computing notebooks, such as Jupyter notebooks, have become a popular tool for developing and improving data-driven models. Such notebooks tend to be executed either in the user's own machine or in a cloud environment, having…

Distributed, Parallel, and Cluster Computing · Computer Science 2021-07-02 Renato L. F. Cunha , Lucas V. Real , Renan Souza , Bruno Silva , Marco A. S. Netto

At present, code recommendation tools have gained greater importance to many software developers in various areas of expertise. Having code recommendation tools has enabled better productivity and performance in developing the code in…

Jupyter notebooks enable developers to interleave code snippets with rich-text and in-line visualizations. Data scientists use Jupyter notebook as the de-facto standard for creating and sharing machine-learning based solutions, primarily…

Software Engineering · Computer Science 2024-06-12 Ashwin Prasad Shivarpatna Venkatesh , Samkutty Sabu , Mouli Chekkapalli , Jiawei Wang , Li Li , Eric Bodden

Jupyter notebooks represent a unique format for programming - a combination of code and Markdown with rich formatting, separated into individual cells. We propose to perceive a Jupyter Notebook cell as a simplified and raw version of a…

Software Engineering · Computer Science 2022-01-03 Sergey Titov , Yaroslav Golubev , Timofey Bryksin

Computational notebooks such as Jupyter are popular for exploratory data analysis and insight finding. Despite the module-based structure, notebooks visually appear as a single thread of interleaved cells containing text, code,…

Human-Computer Interaction · Computer Science 2023-08-22 Chen Chen , Jane Hoffswell , Shunan Guo , Ryan Rossi , Yeuk-Yin Chan , Fan Du , Eunyee Koh , Zhicheng Liu

In software engineering, numerous studies have focused on the analysis of fine-grained logs, leading to significant innovations in areas such as refactoring, security, and code completion. However, no similar studies have been conducted for…

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…

Visualisations drive all aspects of the Machine Learning (ML) Development Cycle but remain a vastly untapped resource by the research community. ML testing is a highly interactive and cognitive process which demands a human-in-the-loop…

Software Engineering · Computer Science 2023-05-23 Arumoy Shome , Luis Cruz , Arie van Deursen

Machine learning developers frequently use interactive computational notebooks, such as Jupyter notebooks, to host code for data processing and model training. Jupyter notebooks provide a convenient tool for writing machine learning…

Software Engineering · Computer Science 2025-01-17 Bihui Jin , Jiayue Wang , Pengyu Nie

Label-free cell classification is advantageous for supplying pristine cells for further use or examination, yet existing techniques frequently fall short in terms of specificity and speed. In this study, we address these limitations through…

Image and Video Processing · Electrical Eng. & Systems 2025-02-25 Khayrul Islam , Ratul Paul , Shen Wang , Yuwen Zhao , Partho Adhikary , Qiying Li , Xiaochen Qin , Yaling Liu

There is a gap between how people explore data and how Jupyter-like computational notebooks are designed. People explore data nonlinearly, using execution undos, branching, and/or complete reverts, whereas notebooks are designed for…

Human-Computer Interaction · Computer Science 2025-04-03 Hanxi Fang , Supawit Chockchowwat , Hari Sundaram , Yongjoo Park

How can we better organize code in computational notebooks? Notebooks have become a popular tool among data scientists, as they seamlessly weave text and code together, supporting users to rapidly iterate and document code experiments.…

Human-Computer Interaction · Computer Science 2022-02-23 Zijie J. Wang , Katie Dai , W. Keith Edwards

Large scale analysis of source code, and in particular scientific source code, holds the promise of better understanding the data science process, identifying analytical best practices, and providing insights to the builders of scientific…

Machine Learning · Computer Science 2020-09-01 Ge Zhang , Mike A. Merrill , Yang Liu , Jeffrey Heer , Tim Althoff

Computational methods for predicting and designing biomolecular structures are increasingly powerful. While previous approaches relied on physics-based modeling, modern tools, such as AlphaFold2 in CASP14, leverage artificial intelligence…

Biomolecules · Quantitative Biology 2025-11-05 Michael Chungyoun , Gabe Au , Britnie Carpentier , Sreevarsha Puvada , Courtney Thomas , Jeffrey J. Gray

Scientific workflows facilitate computational, data manipulation, and sometimes visualization steps for scientific data analysis. They are vital for reproducing and validating experiments, usually involving computational steps in scientific…

Distributed, Parallel, and Cluster Computing · Computer Science 2023-11-22 Jinli Duan , Shasha Dennis

By bringing together code, text, and examples, Jupyter notebooks have become one of the most popular means to produce scientific results in a productive and reproducible way. As many of the notebook authors are experts in their scientific…

Software Engineering · Computer Science 2019-06-13 Jiawei Wang , Li Li , Andreas Zeller

Interactive development environments like Jupyter Notebooks enable incremental coding through cells with immediate feedback, but their linear structure and global namespace limit scalability for large software projects. We present CodePod,…

Software Engineering · Computer Science 2025-08-01 Hebi Li , Forrest Sheng Bao , Qi Xiao , Jin Tian

In this paper, we present a novel model architecture for optimizing personalized product search ranking using a multi-task learning (MTL) framework. Our approach uniquely integrates tabular and non-tabular data, leveraging a pre-trained…

Computational notebooks are notoriously prone to reproducibility failures. By permitting out-of-order cell execution, notebooks accumulate hidden state and implicit dependencies that cause interactive executions to silently diverge from…

Programming Languages · Computer Science 2026-05-05 Stephen N. Freund , Emery D. Berger , Cormac Flanagan , Eunice Jun

Computational notebooks are the primary coding tools for data scientists, but their code quality remains understudied and often poor. Given the importance of maintainability and reusability, enhancing code understandability is essential.…

Software Engineering · Computer Science 2025-06-19 Mojtaba Mostafavi Ghahfarokhi , Alireza Asadi , Arash Asgari , Bardia Mohammadi , Abbas Heydarnoori , Masih Beigi Rizi
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