pysam
Pass
Audited by Gen Agent Trust Hub on Apr 9, 2026
Risk Level: SAFECOMMAND_EXECUTIONEXTERNAL_DOWNLOADS
Full Analysis
- [SAFE]: The skill's primary purpose is to enable genomic data analysis using the well-established pysam Python library. The instructions are technical and aligned with standard bioinformatics practices.
- [COMMAND_EXECUTION]: The skill utilizes
pysam.samtoolsandpysam.bcftoolsmodules, which execute bioinformatics command-line tools through a Python wrapper. This is a core feature of the library and is used as intended for sorting, indexing, and viewing genomic files. - [EXTERNAL_DOWNLOADS]: Mentions standard installation procedures for the pysam library via official package managers such as pip and conda (bioconda channel). These are trusted sources for bioinformatics software.
- [SAFE]: No malicious patterns such as prompt injection, data exfiltration, or obfuscation were detected. All code examples demonstrate legitimate usage of the pysam API for NGS data processing.
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