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Competitive Genomic Screens of Barcoded Yeast Libraries
Published on: August 11, 2011
A libraries reproducibility hackathon: connecting students to university research and testing the longevity of
Chasz Griego1, Kristen Scotti1, Elizabeth Terveen2
1University Libraries, Carnegie Mellon University, Pittsburgh, Pennsylvania, 15213, USA.
F1000Research
|October 9, 2025
Summary
A hackathon in academic libraries successfully demonstrated reproducibility in computational research. Participants reused data and code, with tools like Code Ocean and ChatGPT aiding in troubleshooting, highlighting a path for libraries to support Open Science.
Area of Science:
- Computational Science
- Digital Humanities
- Open Science
Background:
- Reproducibility is a critical challenge in computational science, impacting scientific integrity.
- The Open Science movement is gaining traction, with academic libraries playing a key role.
- The Open Science and Data Collaborations (OSDC) Program at Carnegie Mellon University Libraries promotes Open Science through various initiatives.
Purpose of the Study:
- To address the need for reproducible computational research and promote Open Science.
- To organize a hackathon focused on reproducibility using real research outputs.
- To evaluate the effectiveness of different platforms and tools in facilitating research reproducibility.
Main Methods:
- Organized a one-day hackathon centered on reproducibility, inviting community members.
- Utilized Python code and data from a publication deposited in Harvard Dataverse.
- Employed a compute capsule in Code Ocean and explored ChatGPT for troubleshooting code errors.
Main Results:
- Students successfully reproduced most data visualizations, with some manual adjustments needed for deprecated libraries.
- Code Ocean proved to be an accessible platform, mitigating depreciation risks.
- ChatGPT assisted in identifying and resolving issues encountered during code reruns.
Conclusions:
- The hackathon provided students with hands-on experience evaluating computational research reproducibility.
- Collaboration with faculty enhanced open research materials and highlighted reproducibility challenges.
- This case study offers a model for academic libraries to engage their communities in Open Science practices.
Keywords:
Academic LibrariesCommunity EngagementComputational ResearchDigital HumanitiesHackathonMetascienceOpen ScienceReproducibilitySoftwareMore Related Videos
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