Skill-Audit-Bericht
alterlab-alphafold Audit-Bericht.
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 Trust Score
OpenAgentSkill Trust Score
The Trust Score helps an agent decide whether a skill is safe enough to shortlist before installation.
GitHub-Akzeptanz
Warnung48
66 GitHub-Stars
Star-/Fork-Aktivität
Warnung48
66 Stars und 13 Forks; Issue-Aktivität ist in den aktuellen Metadaten nicht verfügbar
Aktuelle Wartung
Bestanden88
1 Monate seit dem letzten Push
Lizenzklarheit
Bestanden86
MIT
README/SKILL.md-Vollständigkeit
Bestanden86
Metadaten enthalten ausreichend Nutzungs- und Workflow-Kontext
Abhängigkeits-/Laufzeitrisiko
Warnung56
command execution surface, network or browser surface
Installationsverfügbarkeit
Bestanden92
npx skills add AlterLab-IEU/AlterLab-Academic-Skills --skill alterlab-alphafold
Sicherheit des Installationsbefehls
Bestanden92
Standard-Paket- oder Laufzeit-Installationspfad
Berechtigungsumfang
Warnung50
shell or command execution, network or browser access
Repository-Nachweis
Bestanden86
https://github.com/AlterLab-IEU/AlterLab-Academic-Skills/tree/main/skills/bioinformatics/alterlab-alphafold
Prüfstatus
Info66
KI-Prüfdaten verfügbar
Agent-validierte Ergebnisse
Info54
Noch keine Agent-Ergebnisdaten
Prüfungen
Installations- und Adoptionsprüfung
Installationspfad
92
npx skills add AlterLab-IEU/AlterLab-Academic-Skills --skill alterlab-alphafold
Repository
88
https://github.com/AlterLab-IEU/AlterLab-Academic-Skills/tree/main/skills/bioinformatics/alterlab-alphafold
Lizenz
86
MIT
Wartung
88
1 Monate seit dem letzten Push
KI-Prüfung
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-Vollständigkeit
86
Usable description available
Abhängigkeitsrisiko
56
command execution surface, network or browser surface
Sicherheit des Installationsbefehls
92
Standard-Paket- oder Laufzeit-Installationspfad
Berechtigungsumfang
50
shell or command execution, network or browser access
Star-/Fork-Aktivität
48
66 Stars und 13 Forks; Issue-Aktivität ist in den aktuellen Metadaten nicht verfügbar
Akzeptanz
68
66 GitHub-Stars
Warnungen
- 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
Methode
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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