alterlab-nf-core-sarek
Pass
Audited by Gen Agent Trust Hub on Jun 15, 2026
Risk Level: SAFEEXTERNAL_DOWNLOADSCOMMAND_EXECUTION
Full Analysis
- [EXTERNAL_DOWNLOADS]: The skill downloads the nf-core/sarek pipeline (version 3.8.1) and standard genetic reference bundles (GATK GRCh38) from well-known bioinformatics platforms such as nf-co.re and established public resource repositories.
- [COMMAND_EXECUTION]: Instructs the agent to execute shell commands for running the Nextflow workflow engine and bioinformatics tools including bwa-mem2, samtools, and GATK4 to process sequencing data.
- [SAFE]: Analysis of the Python script
scripts/make_samplesheet.pyreveals standard file system and CSV operations for data preparation with no evidence of malicious intent or unauthorized network activity. - [SAFE]: No instances of prompt injection, credential exfiltration, or code obfuscation were identified across the skill's instructions and reference documentation.
Audit Metadata