bio-interdomain-hgt
Pass
Audited by Gen Agent Trust Hub on Sep 1, 2026
Risk Level: SAFE
Full Analysis
- [SAFE]: The skill implements strong security and scientific integrity practices. It enforces a strict database availability gate using environmental variables (
$BIO_DB_ROOT) and checksum-verifies all input databases (arbiter, labels, and comparison collections) before processing. This prevents the use of untrusted or modified datasets. - [SAFE]: The Python driver script (
run_hgt_evidence.py) usesjsonschemafor strict validation of execution manifests and evidence gates. It employshashlibto ensure data integrity of biological databases, which is a best practice for scientific reproducibility and security. - [SAFE]: Command execution is limited to well-known bioinformatics tools (DIAMOND, MMseqs2, MAFFT, IQ-TREE) as described in the documentation. The instructions emphasize using default sensitivity levels to prevent resource exhaustion (DoS) on large datasets.
- [SAFE]: The skill includes specific technical null hypotheses (e.g., assembly contamination, sampling bias) that must be explicitly evaluated, reducing the risk of deceptive results or metadata poisoning by scientific misinterpretation.
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