Informe de auditoría del skill
alterlab-alphafold Informe de auditoría.
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.
Trust Score de OpenAgentSkill
Trust Score de OpenAgentSkill
The Trust Score helps an agent decide whether a skill is safe enough to shortlist before installation.
Adopción en GitHub
Advertencia48
66 estrellas de GitHub
Actividad de stars/forks
Advertencia48
66 estrellas y 13 forks; la actividad de issues no está disponible en los metadatos actuales
Mantenimiento reciente
Aprobado88
1 meses desde el último push
Claridad de licencia
Aprobado86
MIT
Completitud de README/SKILL.md
Aprobado86
Los metadatos incluyen suficiente contexto de uso y flujo de trabajo
Riesgo de dependencias/runtime
Advertencia56
command execution surface, network or browser surface
Disponibilidad de instalación
Aprobado92
npx skills add AlterLab-IEU/AlterLab-Academic-Skills --skill alterlab-alphafold
Seguridad del comando de instalación
Aprobado92
Ruta estándar de paquete o instalación en tiempo de ejecución
Superficie de permisos
Advertencia50
shell or command execution, network or browser access
Evidencia del repositorio
Aprobado86
https://github.com/AlterLab-IEU/AlterLab-Academic-Skills/tree/main/skills/bioinformatics/alterlab-alphafold
Estado de revisión
Info66
Hay datos de revisión por IA disponibles
Resultados comprobados por Agent
Info54
Aún no hay datos de resultados del Agent
Comprobaciones
Revisión de instalación y adopción
Ruta de instalación
92
npx skills add AlterLab-IEU/AlterLab-Academic-Skills --skill alterlab-alphafold
Repositorio
88
https://github.com/AlterLab-IEU/AlterLab-Academic-Skills/tree/main/skills/bioinformatics/alterlab-alphafold
Licencia
86
MIT
Mantenimiento
88
1 meses desde el último push
Revisión por IA
55
allowed-tools grants unrestricted Bash(python:*) and Bash(uv:*), which permits arbitrary code execution; this is broad even if common for bioinformatics tooling.
Completitud de README/SKILL.md
86
Usable description available
Riesgo de dependencias
56
command execution surface, network or browser surface
Seguridad del comando de instalación
92
Ruta estándar de paquete o instalación en tiempo de ejecución
Superficie de permisos
50
shell or command execution, network or browser access
Actividad de stars/forks
48
66 estrellas y 13 forks; la actividad de issues no está disponible en los metadatos actuales
Adopción
68
66 estrellas de GitHub
Advertencias
- 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
Método
This report combines public metadata, AI review output, repository freshness, install readiness, OpenAgentSkill events, quality scoring, trust checks, and the agent safety gate. It is not a full source-code security review.
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