Static analysis-guided agentic AI translation enables Rust as a full stack bioinformatics language
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TL;DR - This paper combines agentic AI with static analysis to translate legacy bioinformatics software into Rust. The approach could reduce technical debt while improving portability, safety, and performance.
- Evaluated translations on commonly used next-generation sequencing and imaging software.
- Provides prompts and supporting software for systematic code translation.
- The translated Bascet pipeline was ~80× smaller, built ~10× faster, and improved key-step performance by more than 3×.
- Removing Unix dependencies enabled Bascet to run natively on Windows without containers.
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Static analysis-guided agentic AI translation enables Rust as a full stack bioinformatics language
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TL;DR - This paper combines agentic AI with static analysis to translate legacy bioinformatics software into Rust. The approach could reduce technical debt while improving portability, safety, and performance.
- Evaluated translations on commonly used next-generation sequencing and imaging software.
- Provides prompts and supporting software for systematic code translation.
- The translated Bascet pipeline was ~80× smaller, built ~10× faster, and improved key-step performance by more than 3×.
- Removing Unix dependencies enabled Bascet to run natively on Windows without containers.