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SKILL verified MIT Self-run

Card Amr Profiler

skill-yulianuzhnenko-bioinformatics-agent-skills-card-amr-profiler · by YuliaNuzhnenko

Scans bacterial genome assemblies against CARD (Comprehensive Antibiotic Resistance Database) and ResFinder to map drug-class resistance heatmaps.

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Install

$ agentstack add skill-yulianuzhnenko-bioinformatics-agent-skills-card-amr-profiler

✓ scanned · ✓ verified, works with Claude Code, Cursor, and more.

Security review

✓ Passed

No issues found. Passed automated security review. · v0.1.0 How review works →

  • ✓ Prompt-injection patterns
  • ✓ Secret / credential exfiltration
  • ✓ Dangerous shell & filesystem operations
  • ✓ Untrusted network calls
  • ✓ Known-malicious package signatures

What it can access

  • ✓ Network access No
  • ✓ Filesystem access No
  • ✓ Shell / process execution No
  • ✓ Environment & secrets No
  • ✓ Dynamic code execution No

From automated source analysis of v0.1.0. “Used” means the capability is present in the source — more access means more to trust, not that it’s unsafe.

View the full security report →

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Reliability & compatibility

✓ Security review passed
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● 3d ago

Declared compatibility

Claude CodeClaude Desktop

Compatibility is declared by the source manifest. End-to-end runtime verification is coming, see below.

Preview Execution monitoring

We're building live execution health for every listing: tool-call success rate, median latency, uptime, and last-checked timestamps, measured, not self-reported. It isn't live yet, so we don't show numbers we can't stand behind.

How agent discovery & health will work →
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About

Agent Skill: CARD & ResFinder Antimicrobial Resistance Skill

[](#) [](#)

📌 Description

Scans bacterial genome assemblies against CARD (Comprehensive Antibiotic Resistance Database) and ResFinder to map drug-class resistance heatmaps.

🤖 Agent Execution Protocol

When an AI Agent is tasked with card-amr-profiler:

  1. Input Validation: Verify that the required input files or coordinates are supplied.
  2. Environment Check: Ensure dependencies (RGI (Resistance Gene Identifier), ResFinder, Seaborn) are installed.
  3. Execution: Run the protocol pipeline snippet below.
  4. Output Generation: Produce actionable Markdown/JSON summaries with publication figures.

💻 Protocol Code Snippet

rgi main --input_sequence genome.fasta --output_file amr_results --input_type contig --local

📥 Input & Output Specifications

Input Contract

  • Target Files: Valid input data matching domain formats.
  • Parameters: Quality thresholds and cutoffs.

Output Contract

  • Results Table: Structured summary dataframe or matrix.
  • Visualization: Rendered SVG/PNG figures.

📄 License

Distributed under the MIT License. See LICENSE for details.

Source & license

This open-source skill is cataloged on AgentStack and links to its original source — we do not rehost the code.

Install and usage instructions live in the source repository linked above.

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Versions

  • v0.1.0 Imported from the upstream source.

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