ngs-shotgun-metagenomics
Pass
Audited by Gen Agent Trust Hub on Aug 15, 2026
Risk Level: SAFECOMMAND_EXECUTIONEXTERNAL_DOWNLOADS
Full Analysis
- Command Execution: The skill is designed to run various local Python scripts and standard bioinformatics tools like Kraken2 and Nextflow. These operations are core to the skill's purpose of processing genomic data.\n- External Resource Utilization: The skill references nf-core/taxprofiler, a pipeline from a widely recognized bioinformatics community. This is a standard method for ensuring reproducibility and adheres to community practices for genomic analysis.\n- Data Ingestion Surface: The workflow ingests external data from user-supplied CSV and TSV files for sample management and metadata. As these files are provided by the user, this represents a data ingestion surface where input validation is a standard consideration for maintainable tool behavior.\n
- Ingestion points:
shotgun_samples.csvandsample_metadata.tsv(referenced inSKILL.md).\n - Boundary markers: No specific boundary markers or "ignore embedded instructions" warnings are visible in the provided instructions.\n
- Capability inventory: The skill executes local Python scripts (
run_shotgun_metagenomics.py) and CLI tools (nextflow,kraken2).\n - Sanitization: The provided file does not specify sanitization or validation logic, which typically resides within the implementation of the invoked scripts.
Audit Metadata