Topic · Information Systems · Computer Science

Software Engineering Research

OpenAlex topic; a paper is listed when OpenAlex scores it at least 0.5 for this topic.

3 papers

Scientific computing in the age of agentic AI: an exploratory field report

Jeremy Zheng Li, Alex Rubinsteyn, Sergey Feldman, Timothy J. O’Donnell, James M. Ferguson, Rob Patro, Ian Driver, Philip Ewels, Felix Krueger, Philipp Angerer, Ilan Gold, Jonathan Manning, Lukas Heumos, Mamad Ahangari, Varun Goyal, , Andrew Ho

This paper explores the use of LLM-based coding agents in scientific computing, presenting case studies in the life sciences and discussing their potential and challenges.

bioRxiv · Aug 5, 2026 · PreprintBioinformatics

Benchmarking Large Language Models for Bio-Image Analysis Code Generation

Robert Haase, Christian Tischer, Jean-Karim Hèriché, Nico Scherf

This work benchmarks large language models for generating Python code in bio-image analysis, evaluating 18 models on 57 tasks with reference solutions and unit-tests.

bioRxiv · Apr 19, 2024 · PreprintBioinformatics

Empirical study on software and process quality in bioinformatics tools

Katalin Ferenc, Konrad Otto, Francisco Gomes de Oliveira Neto, Marcela Dávila López, Jennifer Horkoff, Alexander Schliep

This study evaluates software quality and process issues in HTS alignment tools, finding high maintainability but increasing technical debt and recommending improvements in tooling and documentation.

bioRxiv · Mar 10, 2022 · PreprintBioinformatics