The field of bioinformatics struggles with legacy code - old code that is commonly used but may no longer have a maintainer, or may be written in an now-unfamiliar language (e. g.
arXiv:2607. 04729v1 Announce Type: cross Abstract: LLM agents are increasingly applied to vulnerability analysis, but existing benchmarks have not kept pace.
By Tarek Elsayed, Shiping Yang, Eunsong Koh, Sanika Goyal, Vincent Huang, Paul Ngo, Nathan Young, Mohammad Omidvar Tehrani, Alvyn Kang, Arnell Kang, Zeyu Chen, Ang\'elica Moreira, Xuan Feng, Angel X. Chang, Nick Sumner, Steven Y. Ko
arXiv:2607. 13921v1 Announce Type: cross Abstract: Languages with rich static semantics, such as Rust, provide stronger guarantees for AI-generated code, but their strictness makes generation more difficult.
By Niels M\"undler-Sasahara, Hristo Venev, Dawn Song, Martin Vechev, Jingxuan He
arXiv:2608. 13681v1 Announce Type: cross Abstract: Translating C code into safe, idiomatic Rust is a longstanding software-engineering goal because it can eliminate entire classes of memory-safety vulnerabilities while preserving the functional behavior of legacy systems.
By Pu Zhao, Changdi Yang, Yixiao Chen, Yi Gao, Yifan Cao, Haochen Zeng, Yanzhi Wang
The Bioinfoysis Technical Report introduces a multi‑agent harness designed to improve long‑horizon bioinformatics tasks by maintaining persistent, artifact‑grounded analysis runs. It combines global planning with step‑wise, evidence‑driven replanning, ensuring intermediate results are tied to responsible agents and preventing stale evidence reuse. The system was evaluated on BixBench and LAB‑Bench 2, achieving state‑of‑the‑art accuracy and demonstrating that reliable bioinformatics automation relies on robust planning, execution, memory, and evidence flow.
By Qingyang Shao, Xin Zhang, Zhouyang Yuan, Xianying Chen, Yujia Xiang, Zihao Yang, Tong Ye, Yangqi Zhang, Jiakang Xu, Xiaoqing Yan, Xuan Luo, Keyi Li, Enci Fan, Kai Kang, Zhuohan Liu, Xingyu Jin, Chunran Teng, Tao Li, Xinyu Lv, Minghui Wang, Wenfeng Li, Yidan Gao, Siyu Liu, Mingrui Luo, Zhu Liang, Guanren Qiao, Zhiping Xu
arXiv:2606. 16038v1 Announce Type: cross Abstract: The path toward autonomous software engineering is currently bottlenecked by a severe deficit of diverse, large-scale trajectory data.
By Wasi Uddin Ahmad, Nikolai Ludwig, Somshubra Majumdar, Boris Ginsburg
arXiv:2606. 10933v1 Announce Type: new Abstract: LLM-based coding agents are usually evaluated in familiar software settings: mainstream languages, common libraries, and public repositories.
By Aman Sharma, Sushrut Thorat, Paras Chopra
arXiv:2608. 11469v1 Announce Type: cross Abstract: AI agents are rapidly improving in cybersecurity capabilities when the source code is available for analysis, yet much of the software most consequential to cybersecurity, including malware, firmware, and proprietary applications, is available only as binaries.
By Jeremy Spence, Nicholas Assaderaghi, Jinhao Zhu, Nikil Ravi, Raluca Ada Popa, Guannan Wei, Yangruibo Ding, Zhuo Zhang
arXiv:2604.10800v2 Announce Type: replace-cross
Abstract: Learned classifiers deployed in agentic pipelines face a fundamental reliability problem: predictions are probabilistic inferences, not verif...
By Jugal Gajjar
arXiv:2603. 14501v2 Announce Type: replace-cross Abstract: Large Language Models excel in high-resource programming languages but struggle with low-resource ones.
By Junhang Cheng, Fang Liu, Jia Li, Chengru Wu, Nanxiang Jiang, Li Zhang
ChatDev 2.0, also called DevAll, is a no-code platform that lets users build, run, and inspect heterogeneous multi‑agent systems (MAS) powered by large language models. It combines a declarative executable graph abstraction with a cycle‑aware execution engine, enabling representation and execution of dynamic, cyclic interactions among diverse agents. The integrated visual interface allows users to author, monitor, and inspect MAS—including human‑in‑the‑loop steps—without writing code, and experiments show it matches state‑of‑the‑art MAS performance across three tasks.
By Yufan Dang, Shu Yao, Bowen Lai, Chenting Xu, Ruijie Shi, Wai-Shing Leung, Huatao Li, Chen Qian, Zhiyuan Liu
BuildBench introduces a realistic benchmark for evaluating large language model agents on the task of compiling open‑source software (OSS). It includes diverse OSS projects that lack clear build instructions, have undocumented dependencies, and may require source patching or script modification. The authors also present OSS‑BUILD‑AGENT, a baseline LLM‑based agent that retrieves build instructions effectively and achieves state‑of‑the‑art performance on the benchmark.
By Zehua Zhang, Ati Priya Bajaj, Divij Handa, Siyu Liu, Arvind S Raj, Hongkai Chen, Hulin Wang, Yibo Liu, Zion Leonahenahe Basque, Souradip Nath, Vishal Juneja, Nikhil Chapre, Tiffany Bao, Yan Shoshitaishvili, Adam Doup\'e, Chitta Baral, Ruoyu Wang