Skill 审计报告
alterlab-alphafold 审计报告.
Predict protein 3D structures with AlphaFold2 via ColabFold — MMseqs2-accelerated MSAs, monomer and AlphaFold2-Multimer complex folding, and confidence-based validation (pLDDT, pTM/ipTM, PAE). Use when folding a protein sequence or complex from FASTA, generating a predicted structure with confidence metrics, ranking models, or checking self-consistency of a design. For co-folding a protein WITH a small-molecule ligand or predicting binding affinity prefer alterlab-boltz; for antibody–antigen or one-FASTA multi-entity complexes prefer alterlab-chai; to LOOK UP an already-computed structure prefer alterlab-alphafold-db; for ESM embeddings or inverse folding prefer alterlab-esm. Part of the AlterLab Academic Skills suite.
OpenAgentSkill 信任评分
OpenAgentSkill 信任评分
Trust Score 帮助 Agent 在安装前判断一个 Skill 是否足以进入候选清单。
GitHub 采用度
警告48
66 个 GitHub Stars
Star/Fork 活跃度
警告48
66 个 Star，13 个 Fork; 当前元数据中没有议题活跃度信息
近期维护
通过88
距上次推送 1 个月
许可证清晰度
通过86
MIT
README/SKILL.md 完整度
通过86
元数据包含足够的用法与工作流上下文
依赖与运行时风险
警告56
command execution surface, network or browser surface
安装可用性
通过92
npx skills add AlterLab-IEU/AlterLab-Academic-Skills --skill alterlab-alphafold
安装命令安全性
通过92
标准软件包或运行时安装路径
权限范围
警告50
shell or command execution, network or browser access
仓库证据
通过86
https://github.com/AlterLab-IEU/AlterLab-Academic-Skills/tree/main/skills/bioinformatics/alterlab-alphafold
审查状态
信息66
可用 AI 审查数据
Agent 验证结果
信息54
暂未有 Agent 结果数据
检查项
安装与采用审查
安装路径
92
npx skills add AlterLab-IEU/AlterLab-Academic-Skills --skill alterlab-alphafold
仓库
88
https://github.com/AlterLab-IEU/AlterLab-Academic-Skills/tree/main/skills/bioinformatics/alterlab-alphafold
许可证
86
MIT
维护
88
距上次推送 1 个月
AI 审查
55
allowed-tools grants unrestricted Bash(python:*) and Bash(uv:*), which permits arbitrary code execution; this is broad even if common for bioinformatics tooling.
README/SKILL.md 完整度
86
Usable description available
依赖风险
56
command execution surface, network or browser surface
安装命令安全性
92
标准软件包或运行时安装路径
权限范围
50
shell or command execution, network or browser access
Star/Fork 活跃度
48
66 个 Star，13 个 Fork; 当前元数据中没有议题活跃度信息
采用度
68
66 个 GitHub Stars
警告
- Dependency or permission surface needs review
- Permission surface may require sandboxing
- allowed-tools grants unrestricted Bash(python:*) and Bash(uv:*), which permits arbitrary code execution; this is broad even if common for bioinformatics tooling.
- SKILL.md contains TODO(verify) placeholders for exact ColabFold installation pins and flag names, reducing reproducibility and clarity for agent execution.
- The MSA step sends sequences to a public MMseqs2 API by default; the skill mentions disclosure for sensitive sequences but does not enforce or strongly gate this in the workflow.
- Setup instructions are incomplete: no exact package version, CUDA/JAX pin, or verified command sequence is provided for installing and running ColabFold.
- Quality score needs review
- Permission surface needs review: shell or command execution, network or browser access
- GitHub adoption: 66 GitHub stars
- Stars/forks activity: 66 stars, 13 forks; issue activity unavailable in current metadata
- Dependency/runtime risk: command execution surface, network or browser surface
- Permission surface: shell or command execution, network or browser access
方法
本报告综合公开元数据、AI 审查输出、仓库活跃度、安装就绪度、OpenAgentSkill 事件、质量评分、信任检查和 Agent 安全门槛；它不是完整的源代码安全审计。
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