The Agent Skills Directory

[SAFE]: The skill instructions and scripts contain no evidence of malicious behavior, prompt injection, or data exfiltration. The skill follows standard bioinformatics procedures.
[EXTERNAL_DOWNLOADS]: The skill retrieves biological data from the National Center for Biotechnology Information (NCBI).
Evidence: The NCBITaxa class documented in SKILL.md and references/api_reference.md automatically downloads the NCBI taxonomy database (~300MB) to a local cache folder (~/.etetoolkit/taxa.sqlite). This is a trusted and well-known service in the scientific community.
[COMMAND_EXECUTION]: Provides utility scripts designed for command-line execution for tree processing tasks.
Evidence: Usage examples in SKILL.md demonstrate how to use scripts/tree_operations.py and scripts/quick_visualize.py for tasks such as format conversion, tree rooting, and rendering visualizations.
[SAFE]: System-level installation commands for GUI dependencies are provided as standard administrative procedures.
Evidence: SKILL.md includes brew install and sudo apt-get install commands for Qt and PyQt5, which are necessary for the library's rendering capabilities.

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